Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold286
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1428881
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 8 of 9
Found at i:1097440 original size:32 final size:32
Alignment explanation
Indices: 1097403--1097465 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1097393 TTCAACAATT
*
1097403 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1097435 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1097466 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1097526 original size:13 final size:13
Alignment explanation
Indices: 1097508--1097533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1097498 CATTTTTCTG
1097508 TGTATCGATACAT
1 TGTATCGATACAT
1097521 TGTATCGATACAT
1 TGTATCGATACAT
1097534 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1100013 original size:53 final size:52
Alignment explanation
Indices: 1099900--1100284 Score: 164
Period size: 52 Copynumber: 7.3 Consensus size: 52
1099890 AATTCTCCGT
* * * * * *
1099900 AATCGGGGATATTCCATCTCTGATTTTATTTTCAAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTAC
*
1099952 AATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTCT-AC
* * * *** * * *
1100005 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAACCCGTTATT-TTC
1 AATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACC-AA----TT-TTCTAC
* * * ** * *** *
1100062 GA--GGGGATACTCCAACCCCTG-CTTTA-TTCTTAAAATATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTCT-AC
* * * * *
1100111 AATCGGGGATACTCCAAC-CCGATTTTA-TTGCTAAGACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA-TTTTCTAC
* * * * * **
1100162 AATTGAGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT-CTAC
* * * *
1100214 AATCGGGGAAACTCCAGCTCCGATTTTATTTCCAAAAACATCAATTTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCT-AC
*
1100267 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1100285 CTCGTTATTT
Statistics
Matches: 245, Mismatches: 64, Indels: 47
0.69 0.18 0.13
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 2 0.01
50 15 0.06
51 39 0.16
52 84 0.34
53 69 0.28
54 2 0.01
55 19 0.08
56 1 0.00
57 7 0.03
58 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTAC
Found at i:1100036 original size:27 final size:26
Alignment explanation
Indices: 1100006--1100080 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
1099996 ATTTTTCACA
1100006 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTT-ATC
* *
1100033 ATCGGGGATACTCCAAACCCGTTATT
1 ATCGGGGATACTCCAACCCCGTTATC
*
1100059 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
1100081 TGCTTTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.10
27 22 0.52
28 16 0.38
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (26 bp):
ATCGGGGATACTCCAACCCCGTTATC
Found at i:1100330 original size:28 final size:28
Alignment explanation
Indices: 1100273--1100336 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
1100263 TCACAATCGA
* **
1100273 GGATACTCCAACCTCGTTATTTAATTGG
1 GGATACTCCAACCCCGTTATTTAAGAGG
**
1100301 GGATACTCCAACCCCGTTATTTCCGAGG
1 GGATACTCCAACCCCGTTATTTAAGAGG
1100329 GGATACTC
1 GGATACTC
1100337 AAATCCCGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTAAGAGG
Found at i:1112771 original size:1 final size:1
Alignment explanation
Indices: 1112767--1112852 Score: 82
Period size: 1 Copynumber: 86.0 Consensus size: 1
1112757 ATTCTTTTTC
* * * * * *
1112767 AAAAAAAAAAACAACAAAAAAAAACACAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
1112832 ACAAGAAAAAAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAA
1112853 TCTGCTTAAG
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:1112786 original size:15 final size:14
Alignment explanation
Indices: 1112767--1112852 Score: 95
Period size: 15 Copynumber: 6.1 Consensus size: 14
1112757 ATTCTTTTTC
1112767 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
*
1112781 CAAAAAAAAACACAA
1 -AAAAAAAAAAACAA
1112796 AAAAAAAAAAA-AA
1 AAAAAAAAAAACAA
*
1112809 AAAACAAAAAA-AA
1 AAAAAAAAAAACAA
*
1112822 AAAAAACAAAACAA
1 AAAAAAAAAAACAA
* *
1112836 GAAAAAAGAAAAGAA
1 -AAAAAAAAAAACAA
1112851 AA
1 AA
1112853 TCTGCTTAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
13 23 0.37
14 14 0.23
15 25 0.40
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:1112812 original size:35 final size:35
Alignment explanation
Indices: 1112767--1112852 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 35
1112757 ATTCTTTTTC
* *
1112767 AAAAAAAAAAACAACAAAAAAAAACACAAAAAAAA
1 AAAAAAAAAAACAAAAAAAAAAAAAACAAAAAAAA
* *
1112802 AAAAAAAAAAACAAAAAAAAAAAAAACAAAACAAG
1 AAAAAAAAAAACAAAAAAAAAAAAAACAAAAAAAA
* *
1112837 AAAAAAGAAAAGAAAA
1 AAAAAAAAAAACAAAA
1112853 TCTGCTTAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.00
Consensus pattern (35 bp):
AAAAAAAAAAACAAAAAAAAAAAAAACAAAAAAAA
Found at i:1113913 original size:59 final size:58
Alignment explanation
Indices: 1113821--1114448 Score: 686
Period size: 55 Copynumber: 10.9 Consensus size: 58
1113811 TCCACTTTTT
*
1113821 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTC-TTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
1113880 AGTCCTCAAAGAGC-GAGACGCCTTTTCTTTTAAAGCCCATACAAGTTGGTGGCATCTTC
1 AGTCCTCAAAGAGCAG-GATGCCTTTTC-TTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1113939 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTC-TTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1113998 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTC-TTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * **
1114057 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTT-TTCTTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
* * * **
1114118 AATCCTCAAAGAGTAGGATGCC-TTTC---GAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
**
1114173 AGTCCTCAAAGAGCAGGATGCC-TTTC---AAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
1114227 TAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC
1 -AGTCCTCAAAGAGCAGGATGCCTTTTC-TTT-AAAGCCCACACAAGTTGGTGGCAC-CTTC
* * ** **
1114289 AGTCCCCAAAGAGTAGGACACC-TTTC---AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
** *
1114344 AGTCCTCAAAGAGCAGGACACC-TTTC---AAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
*
1114399 AGTCCTCAAAGAGCAGGATGCC-TTTC---AAAGCCCACACGAGTTGGTGGCAC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCAC
1114449 TTTTTAGTTC
Statistics
Matches: 515, Mismatches: 38, Indels: 36
0.87 0.06 0.06
Matches are distributed among these distances:
54 8 0.02
55 206 0.40
56 10 0.02
58 1 0.00
59 194 0.38
60 32 0.06
61 60 0.12
62 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (58 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:1114269 original size:171 final size:172
Alignment explanation
Indices: 1113816--1114462 Score: 777
Period size: 171 Copynumber: 3.8 Consensus size: 172
1113806 CTCCTTCCAC
1113816 TTTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 TTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTC---TAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1113880 AGTCCTCAAAGAGC-GAGACGCCTTTTCTTTT-AAAGCCCATACAAGTTGGTGGCA-TCTTCAGT
63 AGTCCTCAAAGAGCAG-GACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGT
**
1113942 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
127 CCTCAAAGAGTAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** * * *
1113993 -CCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTC
1 TTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTC---TAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
1114057 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAAT
63 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGT
*
1114121 CCTCAAAGAGTAGGATGCCTTTCGAAGCCCACACAAGTTGGTGGCA
127 CCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* **
1114167 TTTTTCAGTCCTCAAAGAGCAGGATGCC-TTTC-AAAGCCCACACAAGTTGGTGGCATTTTCTAG
1 TTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTAAAGCCCACACAAGTTGGTGGCACCTTC-AG
* * * * *
1114230 TCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCC
65 TCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCT
**
1114295 CAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
130 CAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1114338 TTTTCCAGTCCTCAAAGAGCAGGACACC-TTTC-AAAGCCCACACAAGTTGGTGGCACCTTTTAG
1 TTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTAAAGCCCACACAAGTTGGTGGCACC-TTCAG
* * * *
1114401 TCCTCAAAGAGCAGGATG-C----C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTTCT
65 TCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCT
1114460 CAA
130 CAA
1114463 TTCGCAGGAT
Statistics
Matches: 421, Mismatches: 41, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
165 39 0.09
166 1 0.00
170 25 0.06
171 165 0.39
172 6 0.01
174 26 0.06
175 24 0.06
176 2 0.00
177 83 0.20
178 30 0.07
179 20 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (172 bp):
TTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
CCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTC
AAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1114335 original size:226 final size:224
Alignment explanation
Indices: 1113847--1114462 Score: 758
Period size: 226 Copynumber: 2.7 Consensus size: 224
1113837 GACGCCTTTT
* ** * *
1113847 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGC-GAGACGCCTTTTCTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAG-GACACC-TTTC---
* * *
1113910 TAAAGCCCATACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGC
61 -AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGC
** *
1113975 CCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACA
120 CCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACA
* *
1114039 CAAGTTAGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTC
185 CAAGTTAGTGGCACCTTCAGTCCCCAAAGAGCAGGA---C--CAC
* ** *
1114084 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGTAGGATGCCTTTCGAAGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGC
1114149 CCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGT
66 CCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGT
* * * *
1114214 TGGTGGCATTTTCTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGT
130 TGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTT-AAAGCCCACACAAGTTAGT
* *
1114279 GGCACTTTTCAGTCCCCAAAGAGTAGGA-CAC
194 GGCAC-CTTCAGTCCCCAAAGAGCAGGACCAC
*
1114310 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGC
*
1114375 CCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAG
66 CCACACAAGTTGGTGGCA--TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAG
*
1114439 TTGGTGGCACTTTT-TAGTTCTCAA
129 TTGGTGGCA-TTTTCTAGTCCTCAA
1114463 TTCGCAGGAT
Statistics
Matches: 342, Mismatches: 29, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
226 137 0.40
227 8 0.02
229 26 0.08
230 28 0.08
231 22 0.06
232 19 0.06
233 25 0.07
234 25 0.07
237 33 0.10
238 18 0.05
239 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (224 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGC
CCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTT
GGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGG
CACCTTCAGTCCCCAAAGAGCAGGACCAC
Found at i:1115266 original size:19 final size:18
Alignment explanation
Indices: 1115241--1115308 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1115231 AATTCAACAA
1115241 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1115259 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1115275 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1115291 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
1115309 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 27 0.63
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1115280 original size:13 final size:13
Alignment explanation
Indices: 1115262--1115286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1115252 ACATAAGTGT
1115262 TGTATCGATACAA
1 TGTATCGATACAA
1115275 TGTATCGATACA
1 TGTATCGATACA
1115287 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1115280 original size:32 final size:32
Alignment explanation
Indices: 1115243--1115305 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1115233 TTCAACAATT
*
1115243 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1115275 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1115306 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1115366 original size:13 final size:13
Alignment explanation
Indices: 1115348--1115373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1115338 CATTTTTCTG
1115348 TGTATCGATACAT
1 TGTATCGATACAT
1115361 TGTATCGATACAT
1 TGTATCGATACAT
1115374 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1115391 original size:34 final size:33
Alignment explanation
Indices: 1115328--1115394 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1115318 GCCAAGGAAA
*
1115328 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
1115361 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
1115395 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:1117809 original size:52 final size:53
Alignment explanation
Indices: 1117746--1117871 Score: 166
Period size: 52 Copynumber: 2.4 Consensus size: 53
1117736 CTCAATTCTC
** * * * *
1117746 CACAATCGGGGATATTCCATCTCTGATTTTATTTTC-AAAAACACTAA-TTTT
1 CACAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
*
1117797 CTATAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
1 C-ACAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
1117851 CACAATCGGGGATACCCCAAC
1 CACAATCGGGGATACCCCAAC
1117872 CCCGTTAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 1 0.02
52 29 0.45
53 29 0.45
54 5 0.08
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (53 bp):
CACAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
Found at i:1117975 original size:51 final size:52
Alignment explanation
Indices: 1117913--1118135 Score: 195
Period size: 52 Copynumber: 4.3 Consensus size: 52
1117903 TTTTTTTCAA
* * * * * *
1117913 GGGGATACTCCAACCCCTGCTTTATT-CTTAAAATATTGATTTCT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTGC-TAAAACACTAATTTCTCCACAATC
* *
1117964 GGGGATACTCCAACCCCGGTTTTATTGCTAAGACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTCTCCACAATC
* **
1118016 GGGGATACTCCAACCCCGGTTTTATT-TTCAAAACACTAATTT-TCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTGCT-AAAACACTAATTTCTCC-ACAATC
* * * * * * *
1118068 GGGGATACTCCAGCTCCGATTTTATTTCCAAAA-ACATCAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACAC-T-AATTTCTCCACAATC
*
1118121 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1118136 TCGTTATTTA
Statistics
Matches: 141, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
51 41 0.29
52 77 0.55
53 21 0.15
54 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTCTCCACAATC
Found at i:1118127 original size:53 final size:52
Alignment explanation
Indices: 1117960--1118135 Score: 196
Period size: 52 Copynumber: 3.4 Consensus size: 52
1117950 GATTTCTCAT
* * * * *
1117960 AATCGGGGATACTCCAACCCCGGTTTTATTGCTAAGACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTTCAC
* * *
1118012 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCTT--T
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTT--TTCAC
* *
1118064 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAA-ACATCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC-T-AATTTTTTCAC
*
1118117 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
1118136 TCGTTATTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
51 4 0.04
52 77 0.74
53 22 0.21
54 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTTCAC
Found at i:1118180 original size:28 final size:28
Alignment explanation
Indices: 1118123--1118189 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1118113 TCACAATCGA
**
1118123 GGATACTCCAACCTCGTTATTTAATTGG
1 GGATACTCCAACCTCGTTATTTAAGAGG
**
1118151 GGATACTCCAACCTCGTTATTTCCGAGG
1 GGATACTCCAACCTCGTTATTTAAGAGG
1118179 GGATACTCCAA
1 GGATACTCCAA
1118190 TCCCGAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTATTTAAGAGG
Found at i:1120122 original size:20 final size:20
Alignment explanation
Indices: 1120097--1120150 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1120087 TCCCGTAGCC
1120097 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
*
1120117 ATGTATCGATATAATTCATA
1 ATGTATCGATACAATTCATA
1120137 ATGTATCGATACAA
1 ATGTATCGATACAA
1120151 ATCAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1120629 original size:79 final size:78
Alignment explanation
Indices: 1120450--1120773 Score: 268
Period size: 79 Copynumber: 4.1 Consensus size: 78
1120440 AACGGGGCTA
* * * * * *
1120450 GAGTAT-CCTCGATTATAGAAAATCGGTGTTCTGGAAATAAAATCGAGG-ATGGAATATCCCTTC
1 GAGTATCCCT-GATTGT-GAAAATCGATGTTTTAGAAATAAAATCG-GGTTTGGAGTATCCCTTC
*
1120513 GGAAATAAC-AGGGTTG
63 GAAAATAACGA-GGTTG
* *
1120529 GAGTATCCCTAATTATAGAAAATCGATGTTTT-GAAAATAAAATCAGGG-TTGGAGTATCCCTTC
1 GAGTATCCCTGATTGT-GAAAATCGATGTTTTAG-AAATAAAATC-GGGTTTGGAGTATCCCTTC
1120592 GAAAATAACGAGGTTG
63 GAAAATAACGAGGTTG
* * * ** * *
1120608 GAGTATCCCTGATCGTGGAAAATAGATGCTTTAGAAAT-AAGGCTGGGTTTGGAGTATCCCTACC
1 GAGTATCCCTGATTGT-GAAAATCGATGTTTTAGAAATAAAATC-GGGTTTGGAGTATCCCTTCG
*
1120672 AAAATAACGGGGTTG
64 AAAATAACGAGGTTG
* * * * * *
1120687 GAGTATCTC-GATTGTGAGAAATCAATATTTTAGAAATAATACCGGGTTTGGAGTATCCCCTC-A
1 GAGTATCCCTGATTGTGA-AAATCGATGTTTTAGAAATAAAATCGGGTTTGGAGTATCCCTTCGA
* *
1120750 GAAATAACGGGGTTA
65 -AAATAACGAGGTTG
1120765 GAGTATCCC
1 GAGTATCCC
1120774 CGATGAAATA
Statistics
Matches: 205, Mismatches: 31, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
77 3 0.01
78 65 0.32
79 131 0.64
80 6 0.03
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (78 bp):
GAGTATCCCTGATTGTGAAAATCGATGTTTTAGAAATAAAATCGGGTTTGGAGTATCCCTTCGAA
AATAACGAGGTTG
Found at i:1120804 original size:28 final size:28
Alignment explanation
Indices: 1120737--1120805 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
1120727 ACCGGGTTTG
*
1120737 GAGTATCCCCTCA-GAAATAACGGGGTTA
1 GAGTATCCCC-GATGAAATAACGGGGTTA
* *
1120765 GAGTATCCCCGATGAAATAATGGGGTTG
1 GAGTATCCCCGATGAAATAACGGGGTTA
*
1120793 GAGTATCTCCGAT
1 GAGTATCCCCGAT
1120806 TGTGAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (28 bp):
GAGTATCCCCGATGAAATAACGGGGTTA
Found at i:1120885 original size:51 final size:51
Alignment explanation
Indices: 1120788--1120904 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
1120778 GAAATAATGG
* * * *
1120788 GGTTGGAGTATCTCCGATTGTGAAAAATTGGTGTTTTCAAATTAAAATCG-
1 GGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTCAAAATAAAACCGA
*
1120838 GAGTTGGATTATCCCCAATTGTGAAAAATTGGTGTTTT-AGAAATAAAACCGA
1 G-GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTCA-AAATAAAACCGA
1120890 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1120905 TCGGAAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 2 0.03
51 55 0.95
52 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTCAAAATAAAACCGA
Found at i:1124000 original size:42 final size:41
Alignment explanation
Indices: 1123954--1124210 Score: 135
Period size: 41 Copynumber: 6.0 Consensus size: 41
1123944 GGGGACTAAG
*
1123954 GAAAAAAGGAAATAAAATGCATCATGCCCTTTGAAGACAAA
1 GAAAAAAGGAAATAAAATGCATCATGCTCTTTGAAGACAAA
* ** * * *
1123995 CG-AAAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAA
1 -GAAAAAAGGAAATAAAATGCATCATGCTCTTTGAAGACAAA
*
1124036 -ACAAAAAGGAGAATAAAGTGCATCATGCTCTTTG-AGAACTAGAA
1 GA-AAAAAGGA-AATAAAATGCATCATGCTCTTTGAAG-AC-A-AA
* * * ** * *
1124080 GGGAAAAGAAGGAAATGAAGTGCGTCCCGCTTTTTGAGGACAAA
1 --GAAAA-AAGGAAATAAAATGCATCATGCTCTTTGAAGACAAA
* * * * *
1124124 GGAAAAAA-GAAAAAAAAAGCATCTTGTTCTTTGAGGACAAAA
1 -GAAAAAAGGAAATAAAATGCATCATGCTCTTTGAAGAC-AAA
* ** * *
1124166 GGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAA
1 --GAAAA-AAGGAAATAAAATGCATCATGCTCTTTGAAGACAAA
1124210 G
1 G
1124211 GAGAGAAGGA
Statistics
Matches: 164, Mismatches: 36, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
41 62 0.38
42 26 0.16
43 13 0.08
44 9 0.05
45 24 0.15
46 23 0.14
47 7 0.04
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (41 bp):
GAAAAAAGGAAATAAAATGCATCATGCTCTTTGAAGACAAA
Found at i:1124184 original size:86 final size:88
Alignment explanation
Indices: 1123946--1124249 Score: 283
Period size: 83 Copynumber: 3.6 Consensus size: 88
1123936 TGCTCCTTGG
* * * *
1123946 GGACTAAGGAAAAAAG-GAAATAAAATGCATCATGCCCTTTGA-AGAC--AAA-CG-AAA-AAGG
1 GGACAAAGGAAAAAAGAGAAA-AAAAAGCATCATGCTCTTTGAGA-ACTAAAAGGGAAAAGAAGG
*
1124004 AAATTAAATGTGTCCTGCTTTTTGA
64 AAATGAAATGTGTCCTGCTTTTTGA
** * * ** *
1124029 GGACAAAACAAAAAGGAGAATAAAGTGCATCATGCTCTTTGAGAACTAGAAGGGAAAAGAAGGAA
1 GGACAAAGGAAAAAAGAGAAAAAAAAGCATCATGCTCTTTGAGAACTAAAAGGGAAAAGAAGGAA
* * *
1124094 ATGAAGTGCGTCCCGCTTTTTGA
66 ATGAAATGTGTCCTGCTTTTTGA
* * *
1124117 GGACAAAGGAAAAAAGA-AAAAAAAAGCATCTTGTTCTTTGAGGAC-AAAAGGGAAAAGAAGGAA
1 GGACAAAGGAAAAAAGAGAAAAAAAAGCATCATGCTCTTTGAGAACTAAAAGGGAAAAGAAGGAA
*
1124180 ATGAAATGTGTCCTGCTCTTTGA
66 ATGAAATGTGTCCTGCTTTTTGA
* * * * *
1124203 GGACAAAGGAGAGAAG-G---AAAAAGCATCCTACTCTTTGAGGACTAAAA
1 GGACAAAGGAAAAAAGAGAAAAAAAAGCATCATGCTCTTTGAGAACTAAAA
1124250 AGTGCCAAAA
Statistics
Matches: 180, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
83 55 0.31
84 8 0.04
85 2 0.01
86 51 0.28
87 25 0.14
88 39 0.22
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (88 bp):
GGACAAAGGAAAAAAGAGAAAAAAAAGCATCATGCTCTTTGAGAACTAAAAGGGAAAAGAAGGAA
ATGAAATGTGTCCTGCTTTTTGA
Found at i:1124373 original size:61 final size:59
Alignment explanation
Indices: 1124222--1124847 Score: 523
Period size: 61 Copynumber: 10.4 Consensus size: 59
1124212 AGAGAAGGAA
** * * * * *
1124222 AAAGCATCCTACTCTTTGAGGACTAAAAAGTGCCA-AAACTCGTGTGGGTTTTGAAAAG
1 AAAGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * *
1124280 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAG
1 -AAA-GCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAG
* * *
1124343 AAAGCATCTTACTCTTTGAGGTCTGGAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGAG
1 AAAGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AG
* ** * *
1124404 AAAACATCCTGTTGTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAG
1 AAAGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AG
* * * * * *
1124465 AAGGCGTCCTGA-TCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAG
1 AAAGCATCCT-ACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AG
** * *
1124526 AAAGCATCCTGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * * * * * *
1124585 AAAAGACGTCCTGCTCTTTAAAGACT-GAAGGTGCTACCAACTTGTGTGGGATTTAAAAGGAA
1 -AAAG-CATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AG
* ** * * * *
1124647 AAAGCGTCCTGTTCTTTGAGGACCAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAGCATCCTACTCTTTGAGGA-CTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * *
1124707 AAAAGGCATCCTGA-TCTTTGAGGACT-GAAGATGCCACCAGCTTGTGTGGGCTTT-GAAAG
1 -AAA-GCATCCT-ACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* ** * * *
1124766 --A-CGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGATTTAAAAGG
1 AAAGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* *
1124822 AGAAGACGTCCTGCTCTTTGAGGACT
1 A-AAG-CATCCTACTCTTTGAGGACT
1124848 AAAGGGTGAA
Statistics
Matches: 466, Mismatches: 76, Indels: 48
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.00
54 17 0.04
55 24 0.05
56 4 0.01
59 12 0.03
60 101 0.22
61 255 0.55
62 47 0.10
63 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (59 bp):
AAAGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
Found at i:1124438 original size:122 final size:120
Alignment explanation
Indices: 1124221--1124852 Score: 597
Period size: 122 Copynumber: 5.2 Consensus size: 120
1124211 GAGAGAAGGA
* * * * *
1124221 AAAAGCATCCT-ACTCTTTGAGGACTAAAAAGTGCCA-AAACTCGTGTGGGTTTTGAAAA-GA-A
1 AAAAGCATCCTGA-TCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGA
* * * *
1124282 AAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAG
63 AA-ACATCCTGTTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAG
* * *
1124343 -AAAGCAT-CTTACTCTTTGAGGTCTGGAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAA
1 AAAAGCATCCTGA-TCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
* * *
1124406 AACATCCTGTTGTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGG
64 AACATCCTGTTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * * * *
1124463 AGAAGGCGTCCTGATCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAA
1 A-AAAGCATCCTGATCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
* * *
1124528 AGCATCCTGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
64 AACATCCTGTTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * * * * *
1124585 AAAAGACGTCCTGCTCTTTAAAGACTGAAGGTGCTACCAACTTGTGTGGGATTTAAAAGGA-AAA
1 AAAAG-CATCCTGATCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA
* * * * *
1124649 AGCGTCCTGTTCTTTGAGGACCAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
65 A-CATCCTGTTCTTTGAGGA-CTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * *
1124707 AAAAGGCATCCTGATCTTTGAGGACTGAAGATGCCACCAGCTTGTGTGGGCTTT-----GA-AAG
1 AAAA-GCATCCTGATCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA
* ** ** * * *
1124766 ACGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGATTTAAAAGG
65 ACATCCTGTTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * * *
1124822 AGAAGACGTCCTGCTCTTTGAGGACTAAAGG
1 AAAAG-CATCCTGATCTTTGAGGACTGAAGG
1124853 GTGAAAGGAG
Statistics
Matches: 436, Mismatches: 61, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
114 1 0.00
115 56 0.13
116 16 0.04
117 5 0.01
120 10 0.02
121 83 0.19
122 258 0.59
123 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (120 bp):
AAAAGCATCCTGATCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAA
CATCCTGTTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
Found at i:1124486 original size:183 final size:178
Alignment explanation
Indices: 1124216--1124852 Score: 702
Period size: 183 Copynumber: 3.5 Consensus size: 178
1124206 CAAAGGAGAG
* * ** * * *
1124216 AAGGAAAAAGCATCCTACTCTTTGAGGACTAAAAAGTGCCA-AAACTCGTGTGGGTTTTGAAAA-
1 AAGGAAAAA-CGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGATTT-AAAAG
1124279 GAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGA
64 GAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAGA
* *
1124344 AAGCATCTTACTCTTTGAGGTCTGGAAGGTGCCACCAACTTGTGTGGTCTTTAA
127 AAGCATCTTA-TCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1124398 AAGGAGAAAACATCCTGTTGTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGG
1 AAGGA-AAAACGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGATTTAAAAGG
* * * * *
1124463 AGAAGGCGTCCTGATCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAA
65 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AGAA
1124528 AGCATCCTGT-TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAA
128 AGCAT-CT-TATCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1124581 AAGGAAAAGACGTCCTGCTCTTTAAAGACT-GAAGGTGCTACCAACTTGTGTGGGATTTAAAAGG
1 AAGGAAAA-ACGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGATTTAAAAGG
* * * *
1124645 AAAAAGCGTCCTGTTCTTTGAGGACCAGCAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
65 AAAAGGCGTCCTGCTCTTTGAGGA-CTG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-A
* * *
1124709 AAGGCATCCTGATCTTTGAGGACTGAAGATGCCACCAGCTTGTGTGGGCTTT--
127 AA-GCAT-CTTATCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1124761 ---GAAAGACGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGATTTAAAAGGA
1 AAGGAAAAACGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGATTTAAAAGGA
* *
1124823 GAAGACGTCCTGCTCTTTGAGGACT-AAAGG
66 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
1124853 GTGAAAGGAG
Statistics
Matches: 392, Mismatches: 48, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
174 3 0.01
175 1 0.00
176 19 0.05
177 54 0.14
181 5 0.01
182 117 0.30
183 187 0.48
184 5 0.01
185 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (178 bp):
AAGGAAAAACGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGATTTAAAAGGA
AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGC
ATCTTATCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1128072 original size:9 final size:9
Alignment explanation
Indices: 1128059--1128094 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
1128049 CAAACTCATT
*
1128059 GGCTGCCAT
1 GGCTGCCAA
*
1128068 GGCTGCGAA
1 GGCTGCCAA
1128077 GGCTGCCAA
1 GGCTGCCAA
1128086 GGCTGCCAA
1 GGCTGCCAA
1128095 ACATTAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.36, T:0.14
Consensus pattern (9 bp):
GGCTGCCAA
Found at i:1128318 original size:39 final size:39
Alignment explanation
Indices: 1128272--1128423 Score: 133
Period size: 39 Copynumber: 3.7 Consensus size: 39
1128262 GACCAATGTC
*
1128272 GCTGGCCTTGAATTAGCACATTGGCATAAGCCCAATATT
1 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
* * * * *
1128311 GCTGGCCTTGAATCAGCATATTAGCATCTTGTCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGC-----A-CA--TTGGC-ATAAGCCCAATATT
* * *
1128359 ACTAGCCTTGAATCAGCACATTGGCACAAGCCCAATATT
1 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
*
1128398 GCTGGCCTTGAATCAGCATATTGGCA
1 GCTGGCCTTGAATCAGCACATTGGCA
1128424 CCTTCATCTT
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
39 48 0.55
40 4 0.05
42 2 0.02
43 1 0.01
44 1 0.01
45 2 0.02
47 4 0.05
48 25 0.29
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
Found at i:1128351 original size:87 final size:87
Alignment explanation
Indices: 1128234--1128473 Score: 372
Period size: 87 Copynumber: 2.7 Consensus size: 87
1128224 TGTCAACACA
* * * * *
1128234 AATCAGCATATTGGTATCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCAT
1 AATCAGCATATTGGCATCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1128299 AAGCCCAATATTGCTGGCCTTG
66 AAGCCCAATATTGCTGGCCTTG
* *
1128321 AATCAGCATATTAGCATCTTGTCTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCAC
1 AATCAGCATATTGGCATCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1128386 AAGCCCAATATTGCTGGCCTTG
66 AAGCCCAATATTGCTGGCCTTG
* * * *
1128408 AATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCATTGGCCTTGAATCAGCACATTGGCA
1 AATCAGCATATTGGCATCTT-GTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA
1128473 C
65 C
1128474 CTTAACCATC
Statistics
Matches: 139, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 98 0.71
88 41 0.29
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (87 bp):
AATCAGCATATTGGCATCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
AAGCCCAATATTGCTGGCCTTG
Found at i:1128472 original size:49 final size:49
Alignment explanation
Indices: 1128390--1128865 Score: 519
Period size: 49 Copynumber: 9.6 Consensus size: 49
1128380 TGGCACAAGC
* * *
1128390 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * **
1128439 CCGATGTCATTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGT
* ** * * *
1128491 CCAATGTCGCCAGCCTTGAATTAGCACATTAGCACCTTCATCTTTTAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
1128540 CCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
1128589 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
1128638 CCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
1128687 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * *
1128736 CCGATATCGTTGTCCTTGAATCAGCATATTGGCATCTTTAACAT-TCTTAAG-
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT--CATCT-TTAAGT
* * ** * *
1128787 CCTAATGTCGCCGGCCTTGCCTCAGCACATTGGCA--TTCTTCTTCAAGT
1 CC-AATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
1128835 CTAATGTCGCTGGCCATGAATTAGCACATTG
1 CCAATATCGCTGGCCTTGAATCAGCACATTG
1128866 TCATTCTTCC
Statistics
Matches: 359, Mismatches: 58, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
47 30 0.08
48 2 0.01
49 248 0.69
50 3 0.01
51 3 0.01
52 73 0.20
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:1128707 original size:147 final size:146
Alignment explanation
Indices: 1128390--1128865 Score: 587
Period size: 147 Copynumber: 3.2 Consensus size: 146
1128380 TGGCACAAGC
* * * * *
1128390 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCATTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
* * * *
1128455 TGAATCAGCACATTGGCACCTTAACCATCTTTAAGTCCAATGTCGCCAGCCTTGAATTAGCACAT
66 TGAATCAGCATATTGGCACCTT---TATCTTTAAG-CCAATGTCGCCGGCCTTGAATCAGCACAT
* *
1128520 TAGCACCTTCATCTTTTAGT
127 TGGCACCTTCATCTTTAAGT
* * * *
1128540 CCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
* *
1128605 TGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGG
66 TGAATCAGCATATTGGCACCTTTATCTTTAAG-CCAATGTCGCCGGCCTTGAATCAGCACATTGG
*
1128670 CACCTTCACCTTTAAGT
130 CACCTTCATCTTTAAGT
* *
1128687 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGTCCT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
* * **
1128752 TGAATCAGCATATTGGCATCTTTAACATTCTTAAGCCTAATGTCGCCGGCCTTGCCTCAGCACAT
66 TGAATCAGCATATTGGCACCTTTATC--T-TTAAGCC-AATGTCGCCGGCCTTGAATCAGCACAT
* *
1128817 TGGCA--TTCTTCTTCAAGT
127 TGGCACCTTCATCTTTAAGT
* * * *
1128835 CTAATGTCGCTGGCCATGAATTAGCACATTG
1 CCAATATCGCTGGCCTTGAATCAGCACATTG
1128866 TCATTCTTCC
Statistics
Matches: 283, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
147 134 0.47
148 36 0.13
149 3 0.01
150 110 0.39
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (146 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
TGAATCAGCATATTGGCACCTTTATCTTTAAGCCAATGTCGCCGGCCTTGAATCAGCACATTGGC
ACCTTCATCTTTAAGT
Found at i:1128842 original size:47 final size:46
Alignment explanation
Indices: 1128779--1128874 Score: 120
Period size: 47 Copynumber: 2.1 Consensus size: 46
1128769 ATCTTTAACA
* **
1128779 TTCTTAAGCCTAATGTCGCCGGCCTTGCCTCAGCACATTGGCATTC
1 TTCTTAAGCCTAATGTCGCCGGCCATGAATCAGCACATTGGCATTC
* * * *
1128825 TTCTTCAAGTCTAATGTCGCTGGCCATGAATTAGCACATTGTCATTC
1 TTCTT-AAGCCTAATGTCGCCGGCCATGAATCAGCACATTGGCATTC
1128872 TTC
1 TTC
1128875 CCAGCTTCCG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 5 0.12
47 37 0.88
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (46 bp):
TTCTTAAGCCTAATGTCGCCGGCCATGAATCAGCACATTGGCATTC
Found at i:1129720 original size:33 final size:33
Alignment explanation
Indices: 1129678--1129740 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1129668 AAGAAAATGT
1129678 ATCGATACATT-ATTCAATGTATCGATACATTAC
1 ATCGATACATTGA-TCAATGTATCGATACATTAC
**
1129711 ATCGATACATTGATCTTTGTATCGATACAT
1 ATCGATACATTGATCAATGTATCGATACAT
1129741 CTAGGAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.38
Consensus pattern (33 bp):
ATCGATACATTGATCAATGTATCGATACATTAC
Found at i:1138150 original size:30 final size:30
Alignment explanation
Indices: 1138115--1138188 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
1138105 TCTTTCTTTT
* *
1138115 CAAAGTCCATGACTCAGTGGCATCTCTTCT
1 CAAAGTCCATGACTCAGTGACATCTCTTCC
* **
1138145 TAAAGTCCACAACTCAGTGACATCTCTTCC
1 CAAAGTCCATGACTCAGTGACATCTCTTCC
1138175 CAAAGTCCATGACT
1 CAAAGTCCATGACT
1138189 TTGTGGCACC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (30 bp):
CAAAGTCCATGACTCAGTGACATCTCTTCC
Found at i:1138228 original size:34 final size:32
Alignment explanation
Indices: 1138190--1138556 Score: 240
Period size: 34 Copynumber: 11.4 Consensus size: 32
1138180 TCCATGACTT
1138190 TGTGGCACCTTTTTCTTTTCAAAGTCCACAACTC
1 TGTGGCACCTTTTTCTTTT--AAGTCCACAACTC
1138224 TGTGGCACC-----CTTTTAAGTCCACAACTC
1 TGTGGCACCTTTTTCTTTTAAGTCCACAACTC
* *
1138251 CGTGGCACCTTTTTCTTTTTAAAGCCCACAACTC
1 TGTGGCACCTTTTTC-TTTT-AAGTCCACAACTC
*
1138285 TGTGGCACTCTTTTTCCTTTTAAGTCCATAACT-
1 TGTGGCAC-CTTTTT-CTTTTAAGTCCACAACTC
1138318 TCGTGGCACC-----CTTTTAAGTCCACAACT-
1 T-GTGGCACCTTTTTCTTTTAAGTCCACAACTC
* *
1138345 TCGTGGCATCTTTTTCCTTTTAAGTCCACAACCC
1 T-GTGGCACCTTTTT-CTTTTAAGTCCACAACTC
* * **
1138379 CGTGACATGTTTTTCCTTTTAAGTCCACAACTC
1 TGTGGCACCTTTTT-CTTTTAAGTCCACAACTC
** * *
1138412 CATGGCACATTGTTCCTTTTAAGTCCACAACT-
1 TGTGGCACCTT-TTTCTTTTAAGTCCACAACTC
* *
1138444 TCGTGGCACC-ATTTCTTTTTAAGTCCACGACTC
1 T-GTGGCACCTTTTTC-TTTTAAGTCCACAACTC
** * * *
1138477 CATGGCACCCTTTTCCCTTTTAAGCCCACACCTC
1 TGTGGCA-CCTTTT-TCTTTTAAGTCCACAACTC
** * * *
1138511 CATGGCATCCCTTTTTCCTGTAAGTCCAGAACTC
1 TGTGGCA--CCTTTTTCTTTTAAGTCCACAACTC
**
1138545 CATGGCACCTTT
1 TGTGGCACCTTT
1138557 AAGTCCAATA
Statistics
Matches: 272, Mismatches: 36, Indels: 52
0.76 0.10 0.14
Matches are distributed among these distances:
27 46 0.17
29 5 0.02
31 3 0.01
32 26 0.10
33 83 0.31
34 90 0.33
35 18 0.07
36 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTGGCACCTTTTTCTTTTAAGTCCACAACTC
Found at i:1138244 original size:27 final size:27
Alignment explanation
Indices: 1138211--1138352 Score: 99
Period size: 27 Copynumber: 4.7 Consensus size: 27
1138201 TTTCTTTTCA
1138211 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
*
1138238 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACC-----C-TTTT
*
1138271 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCA--C-----CCTTTT
*
1138306 AAGTCCATAACT-TCGTGGCACCCTTTT
1 AAGTCCACAACTCT-GTGGCACCCTTTT
1138333 AAGTCCACAACT-TCGTGGCA
1 AAGTCCACAACTCT-GTGGCA
1138353 TCTTTTTCCT
Statistics
Matches: 94, Mismatches: 6, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
27 46 0.49
32 2 0.02
33 5 0.05
34 34 0.36
35 4 0.04
36 2 0.02
41 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGCACCCTTTT
Found at i:1138299 original size:35 final size:33
Alignment explanation
Indices: 1138190--1138556 Score: 266
Period size: 33 Copynumber: 11.4 Consensus size: 33
1138180 TCCATGACTT
1138190 TGTGGCACCTTTTT-CTTTTCAAAGTCCACAACTC
1 TGTGGCACCTTTTTCCTTTT--AAGTCCACAACTC
1138224 TGTGGCA-C-----CCTTTTAAGTCCACAACTC
1 TGTGGCACCTTTTTCCTTTTAAGTCCACAACTC
* * *
1138251 CGTGGCACCTTTTTCTTTTTAAAGCCCACAACTC
1 TGTGGCACCTTTTTCCTTTT-AAGTCCACAACTC
*
1138285 TGTGGCACTCTTTTTCCTTTTAAGTCCATAACT-
1 TGTGGCAC-CTTTTTCCTTTTAAGTCCACAACTC
1138318 TCGTGGCA-C-----CCTTTTAAGTCCACAACT-
1 T-GTGGCACCTTTTTCCTTTTAAGTCCACAACTC
* *
1138345 TCGTGGCATCTTTTTCCTTTTAAGTCCACAACCC
1 T-GTGGCACCTTTTTCCTTTTAAGTCCACAACTC
* * **
1138379 CGTGACATGTTTTTCCTTTTAAGTCCACAACTC
1 TGTGGCACCTTTTTCCTTTTAAGTCCACAACTC
** * *
1138412 CATGGCACATTGTTCCTTTTAAGTCCACAACT-
1 TGTGGCACCTTTTTCCTTTTAAGTCCACAACTC
* * *
1138444 TCGTGGCACC-ATTTCTTTTTAAGTCCACGACTC
1 T-GTGGCACCTTTTTCCTTTTAAGTCCACAACTC
** * * *
1138477 CATGGCACCCTTTTCCCTTTTAAGCCCACACCTC
1 TGTGGCA-CCTTTTTCCTTTTAAGTCCACAACTC
** * *
1138511 CATGGCATCCCTTTTTCC-TGTAAGTCCAGAACTC
1 TGTGGCA--CCTTTTTCCTTTTAAGTCCACAACTC
**
1138545 CATGGCACCTTT
1 TGTGGCACCTTT
1138557 AAGTCCAATA
Statistics
Matches: 273, Mismatches: 38, Indels: 46
0.76 0.11 0.13
Matches are distributed among these distances:
27 44 0.16
28 2 0.01
29 5 0.02
32 29 0.11
33 88 0.32
34 85 0.31
35 20 0.07
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (33 bp):
TGTGGCACCTTTTTCCTTTTAAGTCCACAACTC
Found at i:1138324 original size:95 final size:94
Alignment explanation
Indices: 1138191--1138525 Score: 356
Period size: 95 Copynumber: 3.5 Consensus size: 94
1138181 CCATGACTTT
*
1138191 GTGGCAC-CTTTTT-CTTTTCAAAGTCCACAAC-TCTGTGGCACCCTTTTAAGTCCACAACTCCG
1 GTGGCACTCTTTTTCCTTTT--AAGTCCACAACTTC-GTGGCACCCTTTTAAGTCCACAACTTCG
* *
1138253 TGGCACCTTTTTCTTTTTAAAGCCCACAACTCT
63 TGGCACCTTTTTCTTTTT-AAGTCCACAACTCC
*
1138286 GTGGCACTCTTTTTCCTTTTAAGTCCATAACTTCGTGGCACCCTTTTAAGTCCACAACTTCGTGG
1 GTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTTCGTGG
* * *
1138351 CATCTTTTTCCTTTTAAGTCCACAACCCC
66 CACCTTTTTCTTTTTAAGTCCACAACTCC
* * * *
1138380 GTGACA-TGTTTTTCCTTTTAAGTCCACAACTCCATGGCACATTGTTCCTTTTAAGTCCACAACT
1 GTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCAC------CCTTTTAAGTCCACAACT
* *
1138444 TCGTGGCACC-ATTTCTTTTTAAGTCCACGACTCC
60 TCGTGGCACCTTTTTCTTTTTAAGTCCACAACTCC
* * * * * * *
1138478 ATGGCACCCTTTTCCCTTTTAAGCCCACACCTCCATGGCATCCCTTTT
1 GTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCA-CCCTTTT
1138526 TCCTGTAAGT
Statistics
Matches: 205, Mismatches: 24, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
93 30 0.15
94 22 0.11
95 60 0.29
96 8 0.04
97 5 0.02
98 24 0.12
99 55 0.27
100 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (94 bp):
GTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTTCGTGG
CACCTTTTTCTTTTTAAGTCCACAACTCC
Found at i:1138369 original size:33 final size:33
Alignment explanation
Indices: 1138232--1138556 Score: 290
Period size: 33 Copynumber: 9.9 Consensus size: 33
1138222 TCTGTGGCAC
*
1138232 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
1138265 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTTT
* *
1138300 CCTTTTAAGTCCATAACTTCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
*
1138327 CCTTTTAAGTCCACAACTTCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
1138360 CCTTTTAAGTCCACAACCCCGTGACATGTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* *
1138393 CCTTTTAAGTCCACAACTCCATGGCA-CATTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCATC-TTTTT
* **
1138426 CCTTTTAAGTCCACAACTTCGTGGCA-CCATTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * * * *
1138458 CTTTTTAAGTCCACGACTCCATGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
* * *
1138492 CCTTTTAAGCCCACACCTCCATGGCATCCCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAT--CTTTTT
* * * *
1138527 CC-TGTAAGTCCAGAACTCCATGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTT
1138557 AAGTCCAATA
Statistics
Matches: 237, Mismatches: 42, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
27 25 0.11
28 1 0.00
32 29 0.12
33 86 0.36
34 78 0.33
35 18 0.08
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
Found at i:1138623 original size:49 final size:49
Alignment explanation
Indices: 1138553--1139494 Score: 787
Period size: 49 Copynumber: 19.8 Consensus size: 49
1138543 TCCATGGCAC
* *
1138553 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
1138602 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGG-----T-AC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
1138645 CTTTAGGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * ** *
1138694 CTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1138737 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CAT
* * * * * *
1138789 C-ATAAGCCCAACATCGTTGGCCTTGAATCAGCATATTGGTACCTT-GT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
1138836 CTCTAAGACCAATGTTGCTGGCCTTGAATCAGCATATTGG------CA-
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
1138878 ---TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTT-GT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
1138923 CTTTAAGAT-CAATGTCACTGGCCTTGAATCAGCACAATGG------CA-
1 CTTTAAG-TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1138965 C---AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * *
1139011 CTTTAAGACCGATGTC-ATAGGCCTTGAATCAGCACATTGGCACCTTAACCAT
1 CTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTT---CAT
* * ** * *
1139063 CTTTAAGTCCAATGTCACCAGCCTTGAATTAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1139112 CTTTAAGTCCGATATCGCTAGCCTTGAATCAGCATATTGGCACCATT-AT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTCAT
* * * * * *
1139161 CTTTAAGACTAATGTCGCTGGCCTTGAATCAGAACATTGGCACCTTCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
*
1139210 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * * *
1139259 CTTTAAGACCAATGTCACTGGCCTTGAATCAGTACATTGGCACCTTCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1139308 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * * * *
1139357 CTTTAAGTCCGATATCGTTGGTCTTGAATCAGCATATTGGTATCTTTAA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* ** * *
1139406 CATTCCTAAG-CCTAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTT
1 C-TT--TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
1139456 CTTCAAGTCTAATATCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1139495 TCATTCTTCG
Statistics
Matches: 717, Mismatches: 124, Indels: 106
0.76 0.13 0.11
Matches are distributed among these distances:
39 62 0.09
42 1 0.00
43 74 0.10
44 1 0.00
45 2 0.00
46 1 0.00
47 30 0.04
48 67 0.09
49 359 0.50
50 10 0.01
51 39 0.05
52 71 0.10
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:1138898 original size:39 final size:39
Alignment explanation
Indices: 1138852--1139003 Score: 142
Period size: 39 Copynumber: 3.7 Consensus size: 39
1138842 GACCAATGTT
1138852 GCTGGCCTTGAATCAGCATATTGGCATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCATAAGCCCAATATC
* ** *
1138891 GCTGGCCTTAAATCAGCATATTGGCACCTTGTCTTTAAGATCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA---------TAAGCCCAATATC
* * * *
1138939 ACTGGCCTTGAATCAGCACAATGGCACAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCATAAGCCCAATATC
*
1138978 GCTGGCCTTGAATCAGTATATTGGCA
1 GCTGGCCTTGAATCAGCATATTGGCA
1139004 CCTTCATCTT
Statistics
Matches: 88, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
39 56 0.64
48 32 0.36
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCATATTGGCATAAGCCCAATATC
Found at i:1138936 original size:87 final size:86
Alignment explanation
Indices: 1138789--1139052 Score: 359
Period size: 87 Copynumber: 3.0 Consensus size: 86
1138779 CCTTTACCAT
* * * *
1138789 CATAAGCCCAACATCGTTGGCCTTGAATCAGCATATTGGTACCTTGTCTCTAAGACCAATGTTGC
1 CATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTT-C
*
1138854 TGGCCTTGAATCAGCATATTGG
65 TGGCCTTGAATCAGCACATTGG
* * *
1138876 CATAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGTCTTTAAGATCAATGTCAC
1 CATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGT-TC
*
1138941 TGGCCTTGAATCAGCACAATGG
65 TGGCCTTGAATCAGCACATTGG
* * * *
1138963 CACAAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTCATCTTTAAGACCGATG-TC
1 CATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTTC
1139027 ATAGGCCTTGAATCAGCACATTGG
65 -T-GGCCTTGAATCAGCACATTGG
1139051 CA
1 CA
1139053 CCTTAACCAT
Statistics
Matches: 156, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
86 1 0.01
87 120 0.77
88 35 0.22
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (86 bp):
CATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTCT
GGCCTTGAATCAGCACATTGG
Found at i:1140278 original size:13 final size:13
Alignment explanation
Indices: 1140260--1140285 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1140250 TACATAAGTG
1140260 TTGTATCGATACA
1 TTGTATCGATACA
1140273 TTGTATCGATACA
1 TTGTATCGATACA
1140286 AAGCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1143686 original size:19 final size:19
Alignment explanation
Indices: 1143662--1143706 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1143652 CAGATCTATT
*
1143662 GATACA-AAGAAATTGTATC
1 GATACATAA-AAACTGTATC
*
1143681 GATACATTAAAACTGTATC
1 GATACATAAAAACTGTATC
1143700 GATACAT
1 GATACAT
1143707 TTTGACTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (19 bp):
GATACATAAAAACTGTATC
Found at i:1146906 original size:52 final size:52
Alignment explanation
Indices: 1146828--1146975 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 52
1146818 CGAAATATGA
1146828 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
1146880 AAATTTGCCTGCATGTATTGATACATTTTAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
*** *
1146932 AAA-TTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
1146976 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
50 1 0.01
51 33 0.38
52 47 0.55
53 5 0.06
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:1146982 original size:13 final size:13
Alignment explanation
Indices: 1146964--1146988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1146954 CAAAGATTAG
1146964 TGTATCGATACAA
1 TGTATCGATACAA
1146977 TGTATCGATACA
1 TGTATCGATACA
1146989 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1147071 original size:13 final size:13
Alignment explanation
Indices: 1147053--1147077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1147043 CAAAAAAATA
1147053 TGTATCGATACAT
1 TGTATCGATACAT
1147066 TGTATCGATACA
1 TGTATCGATACA
1147078 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1147073 original size:33 final size:33
Alignment explanation
Indices: 1147031--1147097 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1147021 AGTAGCTTAA
1147031 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1147064 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1147097 A
1 A
1147098 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1148315 original size:20 final size:21
Alignment explanation
Indices: 1148292--1148344 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1148282 ACAATTCAAA
** *
1148292 GTATCGATACATGTTACA-AT
1 GTATCGATACATGAAAAAGAT
1148312 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGAAAAAGAT
1148333 GTATCGATACAT
1 GTATCGATACAT
1148345 TTCTTGGTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
GTATCGATACATGAAAAAGAT
Found at i:1150656 original size:21 final size:21
Alignment explanation
Indices: 1150623--1150667 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1150613 TTGCAAGTTG
*
1150623 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1150645 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1150665 AAA
1 AAA
1150668 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1152492 original size:15 final size:15
Alignment explanation
Indices: 1152472--1152502 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1152462 TAAAAATGTC
*
1152472 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1152487 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1152502 C
1 C
1152503 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1157167 original size:13 final size:13
Alignment explanation
Indices: 1157149--1157174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1157139 TACAGCAAGT
1157149 ATGTATCGATACA
1 ATGTATCGATACA
1157162 ATGTATCGATACA
1 ATGTATCGATACA
1157175 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1159261 original size:82 final size:82
Alignment explanation
Indices: 1159169--1159410 Score: 277
Period size: 82 Copynumber: 3.0 Consensus size: 82
1159159 AATCTTTCAT
*
1159169 TAAGGGGGAGAATATTCATTAGTACTATATTGAAAATCAATAATTTGGAGGAAATTGTTTTAATG
1 TAAGGGGGAGAATATTCATTGGTACTATATTGAAAATCAATAATTTGGAGGAAATTGTTTTAATG
1159234 GGAGAAAATTAGAACAA
66 GGAGAAAATTAGAACAA
* ** * ***
1159251 TAAGGGGGAGAATATGCATTGGTACTATATTGAAAATCAATAATTTAAAGG-GA--G-AAAAAT-
1 TAAGGGGGAGAATATTCATTGGTACTATATTGAAAATCAATAATTTGGAGGAAATTGTTTTAATG
* ** * *
1159311 AGAGAATCTT---TCAT
66 GGAGAAAATTAGAACAA
* *
1159325 TAAGGGGGAGCATATTCGA-TGGTACTATATTGAAAATCAATAATTTGGAGGAAATTGTTTTAAA
1 TAAGGGGGAGAATATTC-ATTGGTACTATATTGAAAATCAATAATTTGGAGGAAATTGTTTTAAT
1159389 GGGAGAAAATTAGAACAA
65 GGGAGAAAATTAGAACAA
1159407 TAAG
1 TAAG
1159411 AAATCTTGCA
Statistics
Matches: 124, Mismatches: 27, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
74 47 0.38
75 2 0.02
77 8 0.06
78 5 0.04
79 8 0.06
81 1 0.01
82 53 0.43
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (82 bp):
TAAGGGGGAGAATATTCATTGGTACTATATTGAAAATCAATAATTTGGAGGAAATTGTTTTAATG
GGAGAAAATTAGAACAA
Found at i:1160128 original size:20 final size:20
Alignment explanation
Indices: 1160076--1160128 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1160066 ACCACTGTTA
**
1160076 GTATCGATACATGGTGAATT
1 GTATCGATACATTATGAATT
1160096 GTATCGATACATTATGAATT
1 GTATCGATACATTATGAATT
1160116 GTATCGATACATT
1 GTATCGATACATT
1160129 GAGCCCAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTATGAATT
Found at i:1160661 original size:30 final size:31
Alignment explanation
Indices: 1160604--1160663 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1160594 TATAGGGAGA
*
1160604 AAGGTTCTATCTTAGCCTATGAAAAGATAGG
1 AAGGTTCTATCTTAGCCTATCAAAAGATAGG
1160635 AAGGTTCTATCTTAGCCT-TCAAAAGATAG
1 AAGGTTCTATCTTAGCCTATCAAAAGATAG
1160664 TGTTGTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (31 bp):
AAGGTTCTATCTTAGCCTATCAAAAGATAGG
Found at i:1162285 original size:158 final size:150
Alignment explanation
Indices: 1162022--1162407 Score: 347
Period size: 158 Copynumber: 2.5 Consensus size: 150
1162012 AAGGAATGTG
* * * * *
1162022 TTTATGGTGCCTAATCATGAAAATAATGAAGATCATTACT-AGAATCCATGTTTGTCTTATTTGA
1 TTTATGGTGCCTAATC-TGAAAAGAATGGAGATTATT-CTAAGAATCCATGTTTGTCTCATTTAA
* * *
1162086 G-GCACGAA-TTTAGGCTCTATGTAAAATAGTAGGAAGGAAAGCCTTTCTTGCAAAACAAAAGCA
64 GAG-ATGAACTTT-GGCTCTATGAAAAATAGTAGGAA-GAAAG-CTTTCTTGCAAAACAAAACCA
*
1162149 TCAACATCTTGTATCC-TAATGAGAATACT
125 TCAACATCTTGTA-CCTTAATGAG--GA-T
*
1162178 ATGTTATGGTGCCTAATCTTGAAAAGAATGGGGATTATTCTAAGAATCCATGTTTGTCTCATTTA
1 -T-TTATGGTGCCTAATC-TGAAAAGAATGGAGATTATTCTAAGAATCCATGTTTGTCTCATTTA
* * * *
1162243 AGAGATGAACTTTGGTTCTATGAAAAATGGCAGTA-GAA-AAAGCTTTCTTGTAAAGCCAAACCA
63 AGAGATGAACTTTGGCTCTATGAAAAAT---AGTAGGAAGAAAGCTTTCTTGCAAAACAAAACCA
**
1162306 TCAATGTCTTGTACCTTAATGAGGAT
125 TCAACATCTTGTACCTTAATGAGGAT
* * * * * * *
1162332 TTT-TGGTGTCTTATCTGAAAAAGGATGGAGACTATTATAAGAACCCATGTTTATCTCATTTAA-
1 TTTATGGTGCCTAATCTG-AAAAGAATGGAGATTATTCTAAGAATCCATGTTTGTCTCATTTAAG
1162395 AGGATGAACTTTG
65 A-GATGAACTTTG
1162408 ATTTTAAGGG
Statistics
Matches: 194, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
150 3 0.02
151 60 0.31
152 2 0.01
153 1 0.01
154 1 0.01
155 1 0.01
156 2 0.01
157 38 0.20
158 75 0.39
159 4 0.02
160 3 0.02
161 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (150 bp):
TTTATGGTGCCTAATCTGAAAAGAATGGAGATTATTCTAAGAATCCATGTTTGTCTCATTTAAGA
GATGAACTTTGGCTCTATGAAAAATAGTAGGAAGAAAGCTTTCTTGCAAAACAAAACCATCAACA
TCTTGTACCTTAATGAGGAT
Found at i:1162850 original size:316 final size:315
Alignment explanation
Indices: 1162351--1163050 Score: 829
Period size: 316 Copynumber: 2.2 Consensus size: 315
1162341 CTTATCTGAA
* * *
1162351 AAAGG-ATGGAGACTATTATAAGAACCCATGTTTATCTCATTTAAAGGATGAACTTTGATTTTAA
1 AAAGGAATGGAGACTATTATAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTTTAA
* * * * * * *
1162415 GGGAAATAGGTCAAAGGAAACTTTTCTTGCAAAGTCAAAGCATCAATATCGTGTATCCTAAAAAA
66 GGAAAATAAGTCAAAGAAAACGTCTCTTACAAAGCCAAAGCATCAATATCGTGTATCCTAAAAAA
* * ** *
1162480 GAGAACGTGTTTATGGTTCCCAATCATGAAACAATGGAGATTGTTACAACAATCC-ATTTTCGTC
131 GAGAACGGGTTTATGGTGCCCAATCATGAAACAATAAAGATTGTTACAACAATCCAAGTTT-GTC
* *
1162544 TTGTTTGAGGAACAAACTTTG-TTCTATAAAAAATGGTGAAAAGAAAAGCTTTTCT-AGCAATTC
195 TTATTTGAGGAACAAACTTTGATTCTATAAAAAATGGTGAAAAGAAAAGCTTTTCTCA-CAATAC
** * * *
1162607 CAAAGTATCAATGTCATGTATCCCAATGAAA-GTAATGTGTTTTTGGTTCCTAATCTTG
259 CAAAACATCAAT-TCATGTATCCCAAT-AAAGGGAATGTGTTTTTGGTTCCCAATCTCG
* *
1162665 AAAGGAATGGAGACTGTTACAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTTTAA
1 AAAGGAATGGAGACTATTATAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTTTAA
* * * * **
1162730 GGAAAATGAAG-CAAAGAAAAGGTCTCTTTACGAAGCCAAATCATCACTATCGTGTATCCTAATG
66 GGAAAAT-AAGTCAAAGAAAACGTCTC-TTACAAAGCCAAAGCATCAATATCGTGTATCCTAAAA
* * *
1162794 AAGAGAATGGGTTTATGGTGCCCAATCATGAAA-AGATAAAGATTGTTGCCACAATCCAAGTTTG
129 AAGAGAACGGGTTTATGGTGCCCAATCATGAAACA-ATAAAGATTGTTACAACAATCCAAGTTTG
* * ** * * *
1162858 TCTTATTTGATGTACAAACTTTGATTCTATCGAAAATGGTGGAAAGAAAAGTTTTTCTCACCATA
193 TCTTATTTGAGGAACAAACTTTGATTCTATAAAAAATGGTGAAAAGAAAAGCTTTTCTCACAATA
* **
1162923 CCAAAACATCAATTTATGTATCTTAATAAAGGGAATGTGTTTTTGGTTCCCAATCTCG
258 CCAAAACATCAATTCATGTATCCCAATAAAGGGAATGTGTTTTTGGTTCCCAATCTCG
* * * * * * * *
1162981 AAAAGAATGGAGACTATTATGAGAATCTATGTATGTCTCATTTAAGGGTTGAACGTAGATTTCAA
1 AAAGGAATGGAGACTATTATAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTTTAA
1163046 GGAAA
66 GGAAA
1163051 GTGGTGTAAC
Statistics
Matches: 325, Mismatches: 53, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
314 5 0.02
315 75 0.23
316 196 0.60
317 48 0.15
318 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (315 bp):
AAAGGAATGGAGACTATTATAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTTTAA
GGAAAATAAGTCAAAGAAAACGTCTCTTACAAAGCCAAAGCATCAATATCGTGTATCCTAAAAAA
GAGAACGGGTTTATGGTGCCCAATCATGAAACAATAAAGATTGTTACAACAATCCAAGTTTGTCT
TATTTGAGGAACAAACTTTGATTCTATAAAAAATGGTGAAAAGAAAAGCTTTTCTCACAATACCA
AAACATCAATTCATGTATCCCAATAAAGGGAATGTGTTTTTGGTTCCCAATCTCG
Found at i:1162904 original size:158 final size:159
Alignment explanation
Indices: 1162450--1162993 Score: 441
Period size: 158 Copynumber: 3.4 Consensus size: 159
1162440 CTTGCAAAGT
* ** *
1162450 CAAAGCATCAATATCGTGTATCCTAAAAAAGAGAACGTGTTTATGGTTCCCAATCATGAAACA-A
1 CAAATCATCAATATCGTGTATCCTAATGAAGAGAATGTGTTTATGGTTCCCAATCATGAAA-AGA
* * *
1162514 TGGAGATTGTTACAACAATCC-ATTTTCGTCTTGTTTGAGGAACAAACTTTG-TTCTATAAAAAA
65 TGGAGATTGTTACAACAATCCAAGTTT-GTCTTATTTGAGGAACAAACTTTGATTCTATAGAAAA
* *
1162577 TGGTGAAAAGAAAA-GCTTTTCTAGCAATTC
129 TGGTGAAAAGAAAAGGCTCTTCTAGCAATGC
* * * * * * *
1162607 CAAAGT-ATCAATGTCATGTATCCCAATGAA-AGTAATGTGTTTTTGGTTCCTAATCTTGAAAGG
1 CAAA-TCATCAATATCGTGTATCCTAATGAAGAG-AATGTGTTTATGGTTCCCAATCATGAAAAG
* * * * * * ** *
1162670 AATGGAGACTGTTACAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTTTA-AGGAA
64 -ATGGAGATTGTTACAACAATCCAAGTTTGTCTTATTTGAGGAACAAACTTTGATTCTATA-GAA
** *
1162734 AATGAAGCAAAGAAAAGGTCTCTT-TA-CGAA-GC
127 AATGGTGAAAAGAAAAGG-CTCTTCTAGC-AATGC
* * *
1162766 CAAATCATCACTATCGTGTATCCTAATGAAGAGAATGGGTTTATGGTGCCCAATCATGAAAAGAT
1 CAAATCATCAATATCGTGTATCCTAATGAAGAGAATGTGTTTATGGTTCCCAATCATGAAAAGAT
** * * * * *
1162831 AAAGATTGTTGCCACAATCCAAGTTTGTCTTATTTGATGTACAAACTTTGATTCTATCGAAAATG
66 GGAGATTGTTACAACAATCCAAGTTTGTCTTATTTGAGGAACAAACTTTGATTCTATAGAAAATG
* * * * *
1162896 GTGGAAAGAAAA-GTTTTTCTCA-CCATAC
131 GTGAAAAGAAAAGGCTCTTCT-AGCAATGC
* ** * * * *
1162924 CAAAACATCAAT-TTATGTATCTTAATAAAGGGAATGTGTTTTTGGTTCCCAATC-TCGAAAAGA
1 CAAATCATCAATATCGTGTATCCTAATGAAGAGAATGTGTTTATGGTTCCCAATCAT-GAAAAG-
1162987 ATGGAGA
64 ATGGAGA
1162994 CTATTATGAG
Statistics
Matches: 297, Mismatches: 72, Indels: 35
0.74 0.18 0.09
Matches are distributed among these distances:
156 6 0.02
157 90 0.30
158 118 0.40
159 72 0.24
160 7 0.02
161 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (159 bp):
CAAATCATCAATATCGTGTATCCTAATGAAGAGAATGTGTTTATGGTTCCCAATCATGAAAAGAT
GGAGATTGTTACAACAATCCAAGTTTGTCTTATTTGAGGAACAAACTTTGATTCTATAGAAAATG
GTGAAAAGAAAAGGCTCTTCTAGCAATGC
Found at i:1164335 original size:13 final size:13
Alignment explanation
Indices: 1164317--1164342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1164307 CATTTTGGGA
1164317 TGTATCGATACAT
1 TGTATCGATACAT
1164330 TGTATCGATACAT
1 TGTATCGATACAT
1164343 AATGGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1164339 original size:33 final size:32
Alignment explanation
Indices: 1164297--1164360 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1164287 TACAAGCTAA
**
1164297 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATAATGGG-TGTATCGATACAT
1164330 TGTATCGATACATAATGGGTGTATCGATACA
1 TGTATCGATACATAATGGGTGTATCGATACA
1164361 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAATGGGTGTATCGATACAT
Found at i:1164439 original size:13 final size:13
Alignment explanation
Indices: 1164421--1164445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1164411 ACATTTGGTC
1164421 ATGTATCGATACA
1 ATGTATCGATACA
1164434 ATGTATCGATAC
1 ATGTATCGATAC
1164446 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1166763 original size:20 final size:21
Alignment explanation
Indices: 1166733--1166774 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1166723 CTGTTTTTGT
1166733 TGATGATTTTG-A-TGAAAAA
1 TGATGATTTTGAAGTGAAAAA
1166752 TGATGTATTTTGAAGTGAAAAA
1 TGATG-ATTTTGAAGTGAAAAA
1166774 T
1 T
1166775 AAGAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 1 0.05
22 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (21 bp):
TGATGATTTTGAAGTGAAAAA
Found at i:1173194 original size:13 final size:13
Alignment explanation
Indices: 1173176--1173200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173166 ACATTTGGTC
1173176 ATGTATCGATACA
1 ATGTATCGATACA
1173189 ATGTATCGATAC
1 ATGTATCGATAC
1173201 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1174637 original size:304 final size:305
Alignment explanation
Indices: 1174083--1174753 Score: 703
Period size: 304 Copynumber: 2.2 Consensus size: 305
1174073 GAAAAAAATG
* * ** *
1174083 GAGACTATTACAAGAATCCATATTTGTCTCA-TT-CGAGAGACAAACTTTAATTTTAAA-GAAAA
1 GAGACTATTACGAGAATCCATGTTTGTCTCATTTAC-AGAGATGAACTTTGA-TTTAAAGGAAAA
* **
1174145 TAGGCGAAAAAAAGCTTTTCCTGTGAAGCCAAAGCATCAATATCGATGAAGAGAACATGTTTATG
64 TAGGCGAAAAAAAACTTTTCCTGTGAAGCCAAAGCATCAATATCGATGAAGAGAACATGTTTACA
* * *
1174210 GTGCCCAATCATGAAAAGATGGAGATTGTCTAACAATCCAAGTTTCCATAATTGAGGAAGAAACT
129 ATGCCCAATCATGAAAAGATGGAGATTGTCTAACAACCCAAGTTTACATAATT-AGGAAGAAACT
* *** * * *
1174275 TTGATTCGATTGAAAATGGTGGAAAGAAAAGTTTTTCTTGCAACACCAAAGCGTCAATGTCATGT
193 TTGATTAGAACAAAAATGGTGGAAAGAAAAGCTTTTCTTGCAACAACAAAGAGTCAATGTCATGT
* * * * *
1174340 ATCCCAATAATGGGAAGATGTTTTTCATTTCCAATCTCGAAAAGAAAA
258 ATCCCAATAAAGGGAACATGTTGTTCATTCCCAATCTCAAAAAGAAAA
* *
1174388 GAGACTACTACGAGAATCCATGTTTGTCTCATTTACA-AGATGAACTTTGATTTAAAGGAAAATT
1 GAGACTATTACGAGAATCCATGTTTGTCTCATTTACAGAGATGAACTTTGATTTAAAGGAAAATA
** * * * *
1174452 GGTTAAAGAAAAACTTTTCTTGTGAAGCCAAAGCATCAATATTGATGAGGAGAACGTGTTTACAA
66 GGCGAAA-AAAAACTTTTCCTGTGAAGCCAAAGCATCAATATCGATGAAGAGAACATGTTTACAA
* * * ** * *
1174517 TGCGCAGTCAT-AAAATGATGGAGATTAT-TACAACAACCCAAGTTTATGTCATT-TG-AGAAAC
130 TGCCCAATCATGAAAA-GATGGAGATTGTCT--AACAACCCAAGTTTACATAATTAGGAAGAAAC
* * **
1174578 TTTGATTATAACAAAAATGGTGGAAAGGAAAGCTTTTCTTGTGACAACAAAGAGTCAATGTCATG
192 TTTGATTAGAACAAAAATGGTGGAAAGAAAAGCTTTTCTTGCAACAACAAAGAGTCAATGTCATG
* * ** * * **
1174643 TATGCTAATAAAGGGAACATGTTGTTGGTTCCCAATTTCAAAAATAATG
257 TATCCCAATAAAGGGAACATGTTGTTCATTCCCAATCTCAAAAAGAAAA
* * * * * * *
1174692 GAGACAATTATGAGAATCCATGCTTGTCTCATGTA-AGGGATGAACGTTGATTTTAAGGAAAA
1 GAGACTATTACGAGAATCCATGTTTGTCTCATTTACAGAGATGAACTTTGATTTAAAGGAAAA
1174754 AAAAGGCAAA
Statistics
Matches: 300, Mismatches: 58, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
303 1 0.00
304 154 0.51
305 55 0.18
306 72 0.24
307 18 0.06
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (305 bp):
GAGACTATTACGAGAATCCATGTTTGTCTCATTTACAGAGATGAACTTTGATTTAAAGGAAAATA
GGCGAAAAAAAACTTTTCCTGTGAAGCCAAAGCATCAATATCGATGAAGAGAACATGTTTACAAT
GCCCAATCATGAAAAGATGGAGATTGTCTAACAACCCAAGTTTACATAATTAGGAAGAAACTTTG
ATTAGAACAAAAATGGTGGAAAGAAAAGCTTTTCTTGCAACAACAAAGAGTCAATGTCATGTATC
CCAATAAAGGGAACATGTTGTTCATTCCCAATCTCAAAAAGAAAA
Found at i:1175263 original size:152 final size:150
Alignment explanation
Indices: 1175092--1175569 Score: 380
Period size: 149 Copynumber: 3.2 Consensus size: 150
1175082 AAATGCTTAC
* * * *
1175092 CTTACAAAGCCAAACCATTACTATCATGTATCCCATTGAGGATTTTTGGTGTCTAATCAAGAAAA
1 CTTACAAAGCCAAAGCATTAATATCATGTATCCCA-TGAAGATTTTTGGTGTCTAATCATGAAAA
* *
1175157 GAAAGGAGACTATTACTAGAATCCTTGTTTGTCTCATTTGGGGGATGAACTTTGATTGTAAGGAA
65 GAAAGGAGACTATTACTAAAATCCTTGTTTGTCTCATTTGGGGGATGAACTTTGATTATAAGGAA
1175222 AATAGATCAAAGAGAAACTTTT
130 AATAGATCAAAGA-AAACTTTT
* * * * *
1175244 CTTATAAAGCCAAAGCATTAATATCAAAG-A--ACAT-AATG-TCTTTATGGTGCCCAATCATGA
1 CTTACAAAGCCAAAGCATTAATATC-ATGTATCCCATGAA-GAT-TTT-TGGTGTCTAATCATGA
* * * * * * * * ** * ** * ***
1175304 ATAG-ATGGAGATTGTTGCGACAACCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCTGTT
62 AAAGAAAGGAGACTATTACTAAAATCCTTGTTTGTCTCATTTGGGGGATGAACTTTGATTATAAG
* *
1175368 GAAAAT-GATGGAAAGAAAAGTTTTT
127 GAAAATAGAT-CAAAGAAAA-CTTTT
* * * * * *
1175393 CTTGCAATA-CCAAAGCATCAATATCATGTATCCTAATGAAGATTTTTGTTGTCTAATCATGTAC
1 CTTACAA-AGCCAAAGCATTAATATCATGTATCC-CATGAAGATTTTTGGTGTCTAATCATGAAA
** * * * *
1175457 AGAAAATAGACTATTACTAAAATTCTTGTTTATCTTATTTGGGGCATGAACTTTGA-TATAAGGA
64 AGAAAGGAGACTATTACTAAAATCCTTGTTTGTCTCATTTGGGGGATGAACTTTGATTATAAGGA
* *
1175521 AAATAGGTCAAAGAAAAACTGTT
129 AAATAGATCAAAG-AAAACTTTT
* *
1175544 CTTGCAAAGCCAAAGCATCAATATCA
1 CTTACAAAGCCAAAGCATTAATATCA
1175570 ATAAGGAGAA
Statistics
Matches: 244, Mismatches: 65, Indels: 35
0.71 0.19 0.10
Matches are distributed among these distances:
148 10 0.04
149 85 0.35
150 20 0.08
151 54 0.22
152 70 0.29
153 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (150 bp):
CTTACAAAGCCAAAGCATTAATATCATGTATCCCATGAAGATTTTTGGTGTCTAATCATGAAAAG
AAAGGAGACTATTACTAAAATCCTTGTTTGTCTCATTTGGGGGATGAACTTTGATTATAAGGAAA
ATAGATCAAAGAAAACTTTT
Found at i:1175645 original size:300 final size:301
Alignment explanation
Indices: 1175113--1175711 Score: 797
Period size: 300 Copynumber: 2.0 Consensus size: 301
1175103 AAACCATTAC
* * * *
1175113 TATCATGTATCCCATTGAGGATTTTTGGTGTCTAATCAAGAAAAGAAAGGAGACTATTACTAGAA
1 TATCATGTATCCCAATGAAGATTTTTGGTGTCTAATCAAGAAAAGAAAAGAGACTATTACTAAAA
* * * * *
1175178 TCCTTGTTTGTCTCATTTGGGGGATGAACTTTGATTGTAAGGAAAATAGATCAAAGAGAAACTTT
66 TCCTTGTTTATCTCATTTGGGGCATGAACTTTGATTATAAGGAAAATAGATCAAAGAAAAACTGT
* * * * *
1175243 TCTTATAAAGCCAAAGCATTAATATCAAAGAACATAATGTCTTTATGGTGCCCAATCATGAATAG
131 TCTTACAAAGCCAAAGCATCAATATCAAAGAACAGAACGTCTTTATGGTGCCCAATCATGAAAAG
* * * **
1175308 ATGGAGATTGTTGCGACAACCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCTGTTGAAAA
196 ATGGAGATTGTTACGACAACCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTATATCAAAAA
* *
1175373 TGATGGAAAGAAAAGTTTTTCTTGCAATACCAAAGCATCAA
261 TGATGGAAACAAAAGTTTTTCTTGCAACACCAAAGCATCAA
* * * * * *
1175414 TATCATGTATCCTAATGAAGATTTTTGTTGTCTAATCATGTACAGAAAATAGACTATTACTAAAA
1 TATCATGTATCCCAATGAAGATTTTTGGTGTCTAATCAAGAAAAGAAAAGAGACTATTACTAAAA
* * *
1175479 TTCTTGTTTATCTTATTTGGGGCATGAACTTTGA-TATAAGGAAAATAGGTCAAAGAAAAACTGT
66 TCCTTGTTTATCTCATTTGGGGCATGAACTTTGATTATAAGGAAAATAGATCAAAGAAAAACTGT
* ** * *
1175543 TCTTGCAAAGCCAAAGCATCAATATCAATA-AGGAGAACGTGTTTATGGTGCCCAATGATGAAAA
131 TCTTACAAAGCCAAAGCATCAATATCAA-AGAACAGAACGTCTTTATGGTGCCCAATCATGAAAA
* * *
1175607 GATGGAGATTGTTATGACAACCTAAGTTTGTGTCATTTGAGGGACAAACTTTGATTATATCAAAA
195 GATGGAGATTGTTACGACAACCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTATATCAAAA
* * **
1175672 ATGGTGGAAACAAAATTTTTTCTTGTGACACCAAAGCATC
260 ATGATGGAAACAAAAGTTTTTCTTGCAACACCAAAGCATC
1175712 GATGCCATGT
Statistics
Matches: 255, Mismatches: 42, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
300 169 0.66
301 86 0.34
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (301 bp):
TATCATGTATCCCAATGAAGATTTTTGGTGTCTAATCAAGAAAAGAAAAGAGACTATTACTAAAA
TCCTTGTTTATCTCATTTGGGGCATGAACTTTGATTATAAGGAAAATAGATCAAAGAAAAACTGT
TCTTACAAAGCCAAAGCATCAATATCAAAGAACAGAACGTCTTTATGGTGCCCAATCATGAAAAG
ATGGAGATTGTTACGACAACCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTATATCAAAAA
TGATGGAAACAAAAGTTTTTCTTGCAACACCAAAGCATCAA
Found at i:1177105 original size:243 final size:243
Alignment explanation
Indices: 1176673--1177155 Score: 876
Period size: 243 Copynumber: 2.0 Consensus size: 243
1176663 ATCCTAATGA
*
1176673 GGAGAATATGTTTATGGTTCCCAACTACAAAAGAATGAAAATCATTTCTAGAATCCATGTTTATC
1 GGAGAATATGTTTATGGTGCCCAACTACAAAAGAATGAAAATCATTTCTAGAATCCATGTTTATC
*
1176738 TCATATGAGGGATATGTTTAGGATTTATTTTGACATTTTGATTGGCCATCTAAGGGTCCATACGA
66 TCATATGAGGGATATGTTTAGGATTTATTTTGACATTTTGATTGGCCATCTAAGGGCCCATACGA
*
1176803 GTTTAAGATGTTAAGATGTCTTAAGGTTTTGTCTTTTAGATATAAATAGACTCTGGTAATTGTAA
131 GTTTAAGATGTTAAGATGTCTTAAGGTTTTGTCTTTTAGATATAAATAGACTCTGGTAATGGTAA
1176868 GACTCAGTTTTTTCTAAGTTATTTTGGAAAATTAATTCAAGTTATTTT
196 GACTCAGTTTTTTCTAAGTTATTTTGGAAAATTAATTCAAGTTATTTT
*
1176916 GGAGAATATGTTTATGGTGCCCAACTACAAAAGAATGAAAATCGTTTCTAGAATCCATGTTTATC
1 GGAGAATATGTTTATGGTGCCCAACTACAAAAGAATGAAAATCATTTCTAGAATCCATGTTTATC
* *
1176981 TCATTTGAGGGATATGTTTAGGCTTTATTTTGACATTTTGATTGGCCATCTAAGGGCCCATACGA
66 TCATATGAGGGATATGTTTAGGATTTATTTTGACATTTTGATTGGCCATCTAAGGGCCCATACGA
* * * *
1177046 GTTTCAGATGTTAAGATGTCTTAGGGTTTTGTCTTTTAGCTATAAATAGACTTTGGTAATGGTAA
131 GTTTAAGATGTTAAGATGTCTTAAGGTTTTGTCTTTTAGATATAAATAGACTCTGGTAATGGTAA
1177111 GACTCAGTTTTTTCTAAGTTATTTTGGAAAATTAATTCAAGTTAT
196 GACTCAGTTTTTTCTAAGTTATTTTGGAAAATTAATTCAAGTTAT
1177156 CTTTTTAGTG
Statistics
Matches: 230, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
243 230 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (243 bp):
GGAGAATATGTTTATGGTGCCCAACTACAAAAGAATGAAAATCATTTCTAGAATCCATGTTTATC
TCATATGAGGGATATGTTTAGGATTTATTTTGACATTTTGATTGGCCATCTAAGGGCCCATACGA
GTTTAAGATGTTAAGATGTCTTAAGGTTTTGTCTTTTAGATATAAATAGACTCTGGTAATGGTAA
GACTCAGTTTTTTCTAAGTTATTTTGGAAAATTAATTCAAGTTATTTT
Found at i:1180720 original size:156 final size:158
Alignment explanation
Indices: 1180254--1180753 Score: 713
Period size: 159 Copynumber: 3.2 Consensus size: 158
1180244 ATAGAGACTA
* * * * *
1180254 TTACAAGAATTCATGTTTGTCTCATTTAAGGGATGAACTTTGATTTTAAAGAAAATAAGGCAAAG
1 TTACTAGAATCCATGTTAGTCTCATTTAAGGGATGAACTTTGATTTTAAAGAAAATAGGGCAAAC
* * *
1180319 AAAAGCTTTCCTTGTGAAAGCAAGTCATCAATATCATGTATTATAATAAGTAGAATGTGTCTATG
66 AAAAGCTTTCCTTGTGAAAACAAGTCATCAATATCATGTATTCTAATAAG-AGAATGTGTTTATG
**
1180384 GTGCCTAATCACG-AAAGAATGAAGATCA
130 GTGCCTAATCACGAAAAGAATGAAGATTG
* * * * * *
1180412 TTACTAGAATCCATGTTTGTCTTAGTTATGGGATCAACTTTGATTTTTAAAGAAAATAGAGCAAA
1 TTACTAGAATCCATGTTAGTCTCATTTAAGGGATGAACTTTGA-TTTTAAAGAAAATAGGGCAAA
* *
1180477 TAAAAGCTTTCCTTGTGAAAACAAGTCATCAATATAATGTATTCTAATAAAGAGAATGTGTTTAT
65 CAAAAGCTTTCCTTGTGAAAACAAGTCATCAATATCATGTATTCTAAT-AAGAGAATGTGTTTAT
*
1180542 GGTGCCTAATCAC-AAAAAAATGAAGATTG
129 GGTGCCTAATCACGAAAAGAATGAAGATTG
* * *
1180571 TTACTAGAATCCATGTTAGTCTCATTTAAAGGATGAACTTT-AATTTAAA-AAAATGGGGCAAAC
1 TTACTAGAATCCATGTTAGTCTCATTTAAGGGATGAACTTTGATTTTAAAGAAAATAGGGCAAAC
*
1180634 AAAAGTTTTCCTTGTGAAAACAAGTCATCAATATCATGTATTCTAATAAG-GATATGTGTTTATG
66 AAAAGCTTTCCTTGTGAAAACAAGTCATCAATATCATGTATTCTAATAAGAGA-ATGTGTTTATG
1180698 GTGCCTAATCACGAAAAGAATGAAGATTG
130 GTGCCTAATCACGAAAAGAATGAAGATTG
*
1180727 TTACTAGAATCCATGTTAGTCTTATTT
1 TTACTAGAATCCATGTTAGTCTCATTT
1180754 TGAGGCATGA
Statistics
Matches: 307, Mismatches: 30, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
154 2 0.01
155 26 0.08
156 97 0.32
157 6 0.02
158 38 0.12
159 135 0.44
160 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (158 bp):
TTACTAGAATCCATGTTAGTCTCATTTAAGGGATGAACTTTGATTTTAAAGAAAATAGGGCAAAC
AAAAGCTTTCCTTGTGAAAACAAGTCATCAATATCATGTATTCTAATAAGAGAATGTGTTTATGG
TGCCTAATCACGAAAAGAATGAAGATTG
Found at i:1181107 original size:312 final size:312
Alignment explanation
Indices: 1180710--1181272 Score: 742
Period size: 312 Copynumber: 1.8 Consensus size: 312
1180700 GCCTAATCAC
* * * * *
1180710 GAAAAGAATGAAGATTGTTACTAGAATCCATGTTAGTCTTATTTTGAGGCATGAACTAAGGCTTT
1 GAAAAGAATGAAGATTATTACTAGAATCCATATTAGTCTCATTTTGAGGCATAAACTAAGACTTT
* * * * * *
1180775 ATGGAAATGGTGAGAAAAAAAGCCTTTTTTTGC-AAAACCAAAGCATCAGTATCATGTATCCTAA
66 ATGAAAATAGTGAGAAAAAAAGAC-TTTCTTGCAAAAACCAAAGCATCAATATCATGCATCCTAA
* * * *
1180839 TGAGAAGAA-TGTGTTTATGGTGCCTAGTCTTGAAAAGAGTGGGGATGCTTATGAGAATCCACGT
130 TGA-AAAAACTGTGTTTATGGTGCCTAATCTTGAAAAGAATAGGGATGCTTATGAGAATCCACGT
** * * * * * *
1180903 TTGTCTCATTTGAGTGACGAATTTTGATTTTATGAAAAATGATGGTA-AAAAATGCTTTCCTTAC
194 TCATCTCATGTAAGAGACGAACTTTGACTCTATGAAAAATGATGGTAGAAAAA-GCTTTCCTTAC
1180967 AAAGCCAAACCATCAATGTCATGAATCCCAATGAGGATTTTTGATGCTCGATCTT
258 AAAGCCAAACCATCAATGTCATGAATCCCAATGAGGATTTTTGATGCTCGATCTT
* * *
1181022 GAAAATAATGAAGATTATTACTAGAATCCTTATTTGTCTCA-TTTGAGGCATAAACTTAA-ACTT
1 GAAAAGAATGAAGATTATTACTAGAATCCATATTAGTCTCATTTTGAGGCATAAAC-TAAGACTT
*
1181085 TATGAAAAATAGTG-GTAAAAAAAGACTTTCTTGCAAAAACTAAAGCATCAATATCATGCATCCT
65 TATG-AAAATAGTGAG-AAAAAAAGACTTTCTTGCAAAAACCAAAGCATCAATATCATGCATCCT
* * *
1181149 AATGAAAAAACTGTGTTTATGGTGCCTAATCTTGAAAAGAATAGGGATTCTTATTAGAATCCATG
128 AATGAAAAAACTGTGTTTATGGTGCCTAATCTTGAAAAGAATAGGGATGCTTATGAGAATCCACG
* *
1181214 TTCATCTCATGTAAGAGATGAACTTTGGCTCTATGAAAAATGATGGTAGAAAAAGCTTT
193 TTCATCTCATGTAAGAGACGAACTTTGACTCTATGAAAAATGATGGTAGAAAAAGCTTT
1181273 TCTTGAAAGT
Statistics
Matches: 213, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
311 32 0.15
312 176 0.83
313 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (312 bp):
GAAAAGAATGAAGATTATTACTAGAATCCATATTAGTCTCATTTTGAGGCATAAACTAAGACTTT
ATGAAAATAGTGAGAAAAAAAGACTTTCTTGCAAAAACCAAAGCATCAATATCATGCATCCTAAT
GAAAAAACTGTGTTTATGGTGCCTAATCTTGAAAAGAATAGGGATGCTTATGAGAATCCACGTTC
ATCTCATGTAAGAGACGAACTTTGACTCTATGAAAAATGATGGTAGAAAAAGCTTTCCTTACAAA
GCCAAACCATCAATGTCATGAATCCCAATGAGGATTTTTGATGCTCGATCTT
Found at i:1182595 original size:154 final size:154
Alignment explanation
Indices: 1182309--1183118 Score: 456
Period size: 154 Copynumber: 5.3 Consensus size: 154
1182299 GTGCTCATAG
* * *
1182309 GGGGATACCTTTGACGTAAAAGTACCTGATACCCCTAGAGGACTTAAAAAGGATTTTAAAATGGA
1 GGGGATACCTTTGACATAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGA-TTTAAAATGGA
* * *
1182374 TGAACCTATCCTAAATATCTACTTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCGTTT
65 TGAACCTATCCTAAATACCCACTTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCGGTT
*
1182439 CTAGAAAATTATGAAATTGCCTTTA
130 CTAAAAAATTATGAAATTGCCTTTA
*
1182464 GGGGATACCTTTGACATAAAAGTGCCTGATACCCCTAAAGAACTT-AAAAGGA-TTAGAAATGGG
1 GGGGATACCTTTGACATAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGATTTA-AAAT-GG
* * ** * * *
1182527 ATGAACCTATCCTAAATGCCCACCTTT-GGCATAAAAGCAGACCCGGTGATGACCTTGGAGTTGG
64 ATGAACCTATCCTAAATACCCA-CTTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCGG
* **
1182591 TTCTAAAAAATTA-CAAAAAGACCCTTATA
128 TTCTAAAAAATTATGAAATTG--CCTT-TA
* * * * * * * * * * *
1182620 -GGTATACTTTTGACGTGAAAGTATCTCGGTAACCCTAAAGGACTCAAAAAGGATAT-AGATGGG
1 GGGGATACCTTTGACATAAAAGTACCT-GATACCCCTAAAGAACTTAAAAAGGATTTAAAAT-GG
* * * * * * *
1182683 GTGAACCTATCC----TA---A---T-G-----AAAGCATACTCGGTGGCAATCTA-GACTTGTT
64 ATGAACCTATCCTAAATACCCACTTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCGGT
** ** * *
1182731 TCTAAAAAAAAAACAAAAATAGCC-CTA
129 TCT-AAAAAATTA-TGAAATTGCCTTTA
* * * * * * *
1182758 AGGGATA-CTTTCAACATAAAAATACCCGATACCCCTAAAGGACTTAAAAAGG--TCATAGATGA
1 GGGGATACCTTT-GACATAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGATTTA-AAATG-
** * * * * *
1182820 GACAAACCTATCCTAAATACCCACGTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGACTCGG
63 GATGAACCTATCCTAAATACCCACTTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCGG
* * *
1182885 TTTTAAAAAATTATCAAAATGTCC-TTA
128 TTCTAAAAAATTATGAAATTG-CCTTTA
* * * * * * * *
1182912 GGGGATATCTTCGACATAGAAGTGCCTGATATCCCTAAAGTACTTAAAAATGATTACAAAATGGG
1 GGGGATACCTTTGACATAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGATT-TAAAAT-GG
* ** * * * **
1182977 ATGAACCTATCCTAAATACCCACCATT-GGTATAAAAGCGGACTCGGTGACAACTTAGGACTTTG
64 ATGAACCTATCCTAAATACCCA-CTTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCGG
* * * * **
1183041 TTTTAAAAAAATTACGAAAATACCCCTA
128 TTCT-AAAAAATTATGAAATTGCCTTTA
* ** * *
1183069 AGGGATATTTTTGACGTAAAAGTA-CTCGATACCCCTAAAGGACTTAAAAA
1 GGGGATACCTTTGACATAAAAGTACCT-GATACCCCTAAAGAACTTAAAAA
1183119 AAATTTTAAA
Statistics
Matches: 500, Mismatches: 111, Indels: 86
0.72 0.16 0.12
Matches are distributed among these distances:
137 1 0.00
138 41 0.08
139 23 0.05
140 25 0.05
142 7 0.01
145 3 0.01
148 1 0.00
149 2 0.00
152 4 0.01
153 12 0.02
154 136 0.27
155 80 0.16
156 96 0.19
157 68 0.14
158 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (154 bp):
GGGGATACCTTTGACATAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGATTTAAAATGGAT
GAACCTATCCTAAATACCCACTTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCGGTTC
TAAAAAATTATGAAATTGCCTTTA
Found at i:1184528 original size:13 final size:13
Alignment explanation
Indices: 1184512--1184542 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1184502 TTGAATTTTC
1184512 TTTTTTTCTCACT
1 TTTTTTTCTCACT
*
1184525 TTTTTTTCTCTCT
1 TTTTTTTCTCACT
1184538 TTTTT
1 TTTTT
1184543 CTCCTTGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTCTCACT
Found at i:1185564 original size:163 final size:163
Alignment explanation
Indices: 1185116--1186000 Score: 953
Period size: 166 Copynumber: 5.4 Consensus size: 163
1185106 CAGTATTATT
* ** * * ***
1185116 TGAATTTTAAATATTTTAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGAAGAAAACTTTG
1 TGAATTTTAAAAATTAAAAACCAAGAAAAAT-CCCTCAAAAAAATTTACGGAGTAGAAAACACCG
* * **
1185181 T-TTCTCGAAAAAAAGGGAATTTCAACAAAAAAATCCAAAACTCATGAAAATGAACT-AAGTTTT
65 TATT-TTG-AAAAAAGGGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAA-TGAA-TTTT
* * * * *
1185244 TAAAACTGAAGTAATA-GGAATCAAATAATGATGTTTGA
126 TAAAACTGAATTAATATGAAAT-AAATGATAATATTTGA
** * * * *
1185282 TGAATTTTAAAAATTTAAAAA-TGAGAAAAATCCCATCGAAAATATTTACGGAGTAGAAAATATC
1 TGAATTTTAAAAA-TTAAAAACCAAGAAAAATCCC-TCAAAAAAATTTACGGAGTAGAAAACACC
** * *
1185346 GTATTTCAAAAAAATGGGAGTTTCAAGGAAAAAAATAAAAAACTCATGTAAATGAATGAATTTTT
64 GTATTTTGAAAAAA-GGGAATTTCAA-GAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTT
* * * *
1185411 GAAAAATAAATTAATATGAAGTAAATGATAATATTTTA
127 -AAAACTGAATTAATATGAAATAAATGATAATATTTGA
* * * *
1185449 TAAATTTTAAAAATT-AAAAGCAAGAAAAATCCCTCAAAAAAATATACGAAGTAG-AAACACCGT
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCAAAAAAATTTACGGAGTAGAAAACACCGT
* * * *
1185512 ATTTTGAAAAATGGGAGTTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTAAA
66 ATTTTGAAAAAAGGGAATTTCAA-GAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTAAA
*
1185577 AGCTAAATTAATATGAAATAAATGATAATATTTGA
130 A-CTGAATTAATATGAAATAAATGATAATATTTGA
* *
1185612 TGAATTTTAAAAATTAAAAACCAAG-AAAATCCCTTTAAAAAAATTTACGGAGTAGAAAATACCG
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATCCC-TCAAAAAAATTTACGGAGTAGAAAACACCG
* * * ** *
1185676 CATTTTGAAAAAAGAGGAATTTCAAG--TAAAA-AAAAACCGAATGAAAATGAATGAAATTTTGA
65 TATTTTGAAAAAAG-GGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATG-AATTTTTA
* *
1185738 AAACTGAATTAATGTGAAATAAATGATAATATTTTA
128 AAACTGAATTAATATGAAATAAATGATAATATTTGA
* * * * **
1185774 TGAATTTTCAACATTAAAAACCAAGAAAAATGCCCTCAAAAAAAATTATGGAGTAGAAAACACTA
1 TGAATTTTAAAAATTAAAAACCAAGAAAAAT-CCCTCAAAAAAATTTACGGAGTAGAAAACACCG
**
1185839 TATTTTGAAAAAAAAAGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTAA
65 TATTTTG-AAAAAAGGGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTT-A
*
1185904 AAACTGAATTAATATGAAATAAATAATAATATTTGA
128 AAACTGAATTAATATGAAATAAATGATAATATTTGA
** * *
1185940 TGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCTCGAAAAAATTTACGGAGAAGAAAAC
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CTCAAAAAAATTTACGGAGTAGAAAAC
1186001 TTTTTAATTT
Statistics
Matches: 607, Mismatches: 89, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
162 75 0.12
163 157 0.26
164 51 0.08
165 62 0.10
166 189 0.31
167 70 0.12
168 3 0.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (163 bp):
TGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCAAAAAAATTTACGGAGTAGAAAACACCGT
ATTTTGAAAAAAGGGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTAAAA
CTGAATTAATATGAAATAAATGATAATATTTGA
Found at i:1186075 original size:166 final size:166
Alignment explanation
Indices: 1185116--1186113 Score: 563
Period size: 166 Copynumber: 6.0 Consensus size: 166
1185106 CAGTATTATT
* ** * * * *
1185116 TGAATTTTAAATATTTTAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGAAG-AAA-ACTT
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATGCCCTCAAAAAAAATTACGGAGAAGAAAACACTA
** ** * ** * * **
1185179 TGTTTCTCGAAAAAAAGGGAATTTCAACAAAAAAATCCAAAACTCATGAAAATGAACTAAGTTT-
66 TAATT-T-GAAAAAAAAAGAATTTCAAGAAAAAAATAAAAAACTCATAAAAATAAAGGAA-TTTC
** * * *
1185243 TTAAAACTGAAGTAATAG-G-AATCAAATAATGATGTTTGA
128 CAAAAACTGAATTAAT-GTGAAAT-AAATAATAATATTTGA
** * * * * *
1185282 TGAATTTTAAAAATTTAAAAA-TGAGAAAAAT-CCCATCGAAAATATTTACGGAGTAGAAAATA-
1 TGAATTTTAAAAA-TTAAAAACCAAGAAAAATGCCC-TCAAAAAAAATTACGGAGAAGAAAACAC
* * ** * ** * *
1185344 TCGT-ATTTCAAAAAAATGGGAGTTTCAAGGAAAAAAATAAAAAACTCATGTAAATGAATGAATT
64 T-ATAATTTGAAAAAAA-AAGAATTTCAA-GAAAAAAATAAAAAACTCATAAAAATAAAGGAA-T
** * * * * *
1185408 TTTGAAAAA-TAAATTAATATGAAGTAAATGATAATATTTTA
125 TTCCAAAAACTGAATTAATGTGAAATAAATAATAATATTTGA
* * * * *
1185449 TAAATTTTAAAAATT-AAAAGCAAGAAAAAT-CCCTC-AAAAAAATATACGAAGTAG-AAACACC
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATGCCCTCAAAAAAAAT-TACGGAGAAGAAAACACT
* * *** * * * * * * **
1185510 GTATTTTG-AAAAATGGGAGTTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTT
65 ATAATTTGAAAAAAAAAGAATTTCAA-GAAAAAAATAAAAAACTCATAAAAATAAAGGAATTTCC
* * * *
1185574 AAAAGCTAAATTAATATGAAATAAATGATAATATTTGA
129 AAAAACTGAATTAATGTGAAATAAATAATAATATTTGA
* * * * *
1185612 TGAATTTTAAAAATTAAAAACCAAG-AAAAT-CCCTTTAAAAAAATTTACGGAGTAGAAAATACC
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATGCCC-TCAAAAAAAATTACGGAGAAGAAAACACT
** * * * * * ** * * * *
1185675 GCATTTTGAAAAAAGAGGAATTTCAAG--TAAAA-AAAAACCGAATGAAAATGAATGAAATTT-T
65 ATAATTTGAAAAAAAAAGAATTTCAAGAAAAAAATAAAAAACTCATAAAAAT-AAAGGAATTTCC
* * *
1185736 GAAAACTGAATTAATGTGAAATAAATGATAATATTTTA
129 AAAAACTGAATTAATGTGAAATAAATAATAATATTTGA
* * * *
1185774 TGAATTTTCAACATTAAAAACCAAGAAAAATGCCCTCAAAAAAAATTATGGAGTAGAAAACACTA
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATGCCCTCAAAAAAAATTACGGAGAAGAAAACACTA
* * * * **
1185839 TATTTTGAAAAAAAAAGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTAA
66 TAATTTGAAAAAAAAAGAATTTCAAGAAAAAAATAAAAAACTCATAAAAATAAAGGAATTTCCAA
*
1185904 AAACTGAATTAATATGAAATAAATAATAATATTTGA
131 AAACTGAATTAATGTGAAATAAATAATAATATTTGA
** * * **
1185940 TGAATTTTAAAAATTAAAAATTAAGAAAAAT-CCTCTCGAAAAAATTTACGGAGAAGAAAACTTT
1 TGAATTTTAAAAATTAAAAACCAAGAAAAATGCC-CTCAAAAAAAATTACGGAGAAGAAAACACT
* ** * * * * *
1186004 TTAATTTGAAAATAGGAGGAA-TTCAA-AATGAAAATCAATAATTC-TAAAAATAAAAGGAATTT
65 ATAATTTGAAAA-AAAAAGAATTTCAAGAA-AAAAATAAAAAACTCATAAAAAT-AAAGGAATTT
* * * * *
1186066 CCCAAAACTGATTTGATGGGAATTAAATAATAATATTTGA
127 CCAAAAACTGAATTAATGTGAAATAAATAATAATATTTGA
1186106 -GAAATTTT
1 TG-AATTTT
1186114 GATGTATGAA
Statistics
Matches: 676, Mismatches: 124, Indels: 64
0.78 0.14 0.07
Matches are distributed among these distances:
162 78 0.12
163 155 0.23
164 38 0.06
165 70 0.10
166 249 0.37
167 78 0.12
168 8 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.28
Consensus pattern (166 bp):
TGAATTTTAAAAATTAAAAACCAAGAAAAATGCCCTCAAAAAAAATTACGGAGAAGAAAACACTA
TAATTTGAAAAAAAAAGAATTTCAAGAAAAAAATAAAAAACTCATAAAAATAAAGGAATTTCCAA
AAACTGAATTAATGTGAAATAAATAATAATATTTGA
Found at i:1187677 original size:160 final size:158
Alignment explanation
Indices: 1187498--1187946 Score: 473
Period size: 160 Copynumber: 2.8 Consensus size: 158
1187488 TTTTTGGTTT
* * *
1187498 CCAATCTCAAAAAGAATGAAGATTTTTATAGGAATCGATGTTTGTTTCATTTAAGAGATGAACAT
1 CCAATCTCAAAAAGAATGAAGATTATTATAGGAATCCATGTTTGTCTCATTTAAGAGATGAACAT
* *
1187563 TGATTTTAAGGAAAAT-AAGGCAAAAAAAAGCTTTCCTTGCAAAAAGCAAAACATCAATATCATG
66 TGATTTTAAGGAAAATGATGGCAAAAAAAAGCTTTTCTTGCAAAAA-CAAAACATCAATATCATG
1187627 TACCCTAAT-AGTAAGAATATGTATATGGTGC
130 T--CCTAATGAG-AAGAATATGTATATGGTGC
* * *
1187658 CCAATCTCAAAAAGAATGAAGATCATTACTA-GAATCCTTGTTTGTCTCATTTGAG-GCATG-AC
1 CCAATCTCAAAAAGAATGAAGATTATTA-TAGGAATCCATGTTTGTCTCATTTAAGAG-ATGAAC
* * * * * * * *
1187720 CTTAGACTTTATGGAAAATGGTGGGAAAAAAAAGCTTTTCTTGCAAAACCAAAGCATCAATAGCA
64 ATT-GATTTTAAGGAAAATGATGGCAAAAAAAAGCTTTTCTTGCAAAAACAAAACATCAATATCA
* *
1187785 CTTGTCCTAATGAGAATAATATGTTTATGGTGC
128 --TGTCCTAATGAGAAGAATATGTATATGGTGC
* * * *
1187818 CTAATCTTAAAAAGAATCG-GGATTATTAT-GAGAATCCATGTTTGCCTCATTTAAGAGATGAAC
1 CCAATCTCAAAAAGAAT-GAAGATTATTATAG-GAATCCATGTTTGTCTCATTTAAGAGATGAAC
* * * * * * * *
1187881 TTTGATTCTACGAAAAATGATGGTAAAAAAAA-CTTTTCTTGCAAAGACAAACCATCAATGTCAT
64 ATTGATTTTAAGGAAAATGATGGCAAAAAAAAGCTTTTCTTGCAAAAACAAAACATCAATATCAT
1187945 GT
129 GT
1187947 GTCCCAATGA
Statistics
Matches: 240, Mismatches: 37, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
157 3 0.01
159 32 0.13
160 168 0.70
161 34 0.14
162 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (158 bp):
CCAATCTCAAAAAGAATGAAGATTATTATAGGAATCCATGTTTGTCTCATTTAAGAGATGAACAT
TGATTTTAAGGAAAATGATGGCAAAAAAAAGCTTTTCTTGCAAAAACAAAACATCAATATCATGT
CCTAATGAGAAGAATATGTATATGGTGC
Found at i:1188432 original size:776 final size:774
Alignment explanation
Indices: 1186990--1188604 Score: 1826
Period size: 776 Copynumber: 2.1 Consensus size: 774
1186980 CCTTTTTTGT
* * * * * *
1186990 AAACCGAAGTATCAATATCGTGTATCCTAA-GAAGAAGAATGTGTTTAT-GTGCTTAATCTTGAA
1 AAACCAAAGAATCAATAGCATGTGTCCTAATG-AGAA-AATGTGTTTATGGTGCCTAATCTTGAA
* * *
1187053 AAGTATAGGGATTCTTATGAGAATCCATGTTTATCATATTTAAGAGATAAACTCTGATTCTACGA
64 AAGAATAGGGATTATTATGAGAATCCATGTTTAGCATATTTAAGAGATAAACTCTGATTCTACGA
* * * * * *
1187118 AAAATGGTGGTAAAAAAAGCTTCTTTACAAAGCCAAGCCATCAATGTCGTGTATCCCATTGAGGA
129 AAAATGATGGTAAAAAAAACTTCTTTACAAAGACAAACCATCAATGTCATGTATCCCAATGAGGA
* * * * *
1187183 TTTTTGGTGTCCAATCATGACAACAATAAAGACTTACTTGAATCCATGTTTACCTCATTTGAGGG
194 CTTTTGGTGTCCAATCATGAAAACAATAAAGACTTACTAGAATCCATGTTTACCTCATTTCAGCG
* * * * *
1187248 ATGAACTTTAATTTTAAGGAAAATAGGCTAAAGAAAAACTATTCTTGCAAAACCAAAGCATCAAT
259 ATGAAATTTAATCTTAAGGAAAATAGGCTAAAGAAAAAATATTCTTACAAAACAAAAGCATCAAT
* * * * ** *
1187313 ATCGATAAAGAGCATGTGTTTATATGCCTAATCATGAAAAGATGGACATTGTTATGACAACCCAA
324 ATCGATAAAGAGAACGTGTTTATATGCCCAATCATGAAAAGATAGACATTACTACGACAACCCAA
* * * *
1187378 GTTTGTTTCATTTGAGGGACGAACTTTGATTTTATCGAAAGTAATGGAAAGAAAAGTTTTTCTTG
389 GTTTATTTCATTTGAGGGACAAACTTTGATTCTATCGAAAATAATGGAAAGAAAAGTTTTTCTTG
* *
1187443 TAACACTAATGCATCAATGTCATATATCCCAATGAAAGGAACGTGTTTTTGGTTTCCAATCTCAA
454 TAACACTAAAGCATCAATGTCAGATATCCCAATGAAAGGAACGTGTTTTTGGTTTCCAATCTCAA
* * * * *
1187508 AAAGAATGAAGATTTTTATAGGAATCGATGTTTGTTTCATTTAAGAGATGAACATTGATTTTAAG
519 AAAGAATGAAGATTATTATAGAAATCCATGTTTGTCTCATTAAAGAGATGAACATTGATTTTAAG
*
1187573 GAAAATAAGGCAAAAAAAAGCTTTCCTTGCAAAAAGCAAAACATCAATATCATGTACCCTAATAG
584 GAAAATAAGGCAAAAAAAAGCTTTCCTCGCAAAAAGCAAAACATCAATATCATGTACCCTAATAG
* * * *
1187638 TAAGAATATGTATATGGTGCCCAATC-TCAAAAAGAATGAAGATCATTACTAGAATCCTTGTTTG
649 GAAGAATATGTATATGGTGCCCAATCAT-AAAAAGAATGAAGATCATTACTAGAAGCCATGTTTA
* * * * * * * **
1187702 TCTCATTTGAGGCATGACCTTAGACTTTATGGAAAATGGTGGGAAAAAAAAGCTTTTCTTGCA
713 TCTCATTTGAGGCACGAACTTAGACTCTACGAAAAATGATGGG-AAAAAAAGCCTTTCCAGCA
* * *
1187765 AAACCAAAGCATCAATAGCACT-TGTCCTAATGAGAATAATATGTTTATGGTGCCTAATCTTAAA
1 AAACCAAAGAATCAATAGCA-TGTGTCCTAATGAGAA-AATGTGTTTATGGTGCCTAATCTTGAA
* * * *
1187829 AAGAATCGGGATTATTATGAGAATCCATGTTT-GCCTCATTTAAGAGATGAACTTTGATTCTACG
64 AAGAATAGGGATTATTATGAGAATCCATGTTTAGCAT-ATTTAAGAGATAAACTCTGATTCTACG
* * *
1187893 AAAAATGATGGTAAAAAAAACTTTTCTTGCAAAGACAAACCATCAATGTCATGTGTCCCAATGAG
128 AAAAATGATGGTAAAAAAAACTTCT-TTACAAAGACAAACCATCAATGTCATGTATCCCAATGAG
* * * * * * * *
1187958 GACTTTTGGTG-CCTAATCGTGAAAAGAGTAGAGCCTATTACTAGAATCTATTTTTATCC-CTTT
192 GACTTTTGGTGTCC-AATCATGAAAACAATAAAGAC--TTACTAGAATCCATGTTTA-CCTCATT
* * * * *
1188021 TCAGCGATGAAATTTGATCTTAAGGAAAGT-GGGTCAAAGAAAAAATTTTCTTACAAAGCAAAAG
253 TCAGCGATGAAATTTAATCTTAAGGAAAATAGGCT-AAAGAAAAAATATTCTTACAAAACAAAAG
* * * * * * * *
1188085 CATCAATATTGATGAGGAGAACGTTTTTATGGTGCCCCATCATGCAAAGATAGAGATTACTACGA
317 CATCAATATCGATAAAGAGAACGTGTTTAT-ATGCCCAATCATGAAAAGATAGACATTACTACGA
* **
1188150 TAACCCAAGTTTATCTT-ATTTGAGGGACAAAC-TTGATTCTATC-AAGAATGGTGGAAAGAAAA
381 CAACCCAAGTTTAT-TTCATTTGAGGGACAAACTTTGATTCTATCGAA-AATAATGGAAAGAAAA
* * ** *
1188212 GTTTTTCTTGTGACACTAAAGCATCAATGTCAGATATCCTAATG-AAGGAATTTTTTTTTGG-TT
444 GTTTTTCTTGTAACACTAAAGCATCAATGTCAGATATCCCAATGAAAGGAACGTGTTTTTGGTTT
* * *
1188275 CTGAATCTCAAAATGAATGAAGATTATTAT-GAAAATCCATGTTT-TACTCATTAAAGGGATGAA
509 C-CAATCTCAAAAAGAATGAAGATTATTATAG-AAATCCATGTTTGT-CTCATTAAAGAGATGAA
** * * * * * * **
1188338 TTTTTATTTTAAGGAAAAT-AGGGAAAGAAAAGCTTTCCTCGC-AGACGCAAATCATCAATATTG
571 CATTGATTTTAAGGAAAATAAGGCAAAAAAAAGCTTTCCTCGCAAAAAGCAAAACATCAATATCA
* * * * *
1188401 TGTATCCTAATGGGGAGAACT-TGTTTATGGTGCCCAATCATGAAAAGAATGAAGATCATTACTA
636 TGTACCCTAATAGGAAGAA-TATGTATATGGTGCCCAATCATAAAAAGAATGAAGATCATTACTA
* * * *
1188465 GAAGCCATGTTTATCTCATTTGATGCCCGAACTTATACTCTACGAAAAATGATGGGAAGAAAAGC
700 GAAGCCATGTTTATCTCATTTGAGGCACGAACTTAGACTCTACGAAAAATGATGGGAAAAAAAGC
1188530 CTTTCCAGCA
765 CTTTCCAGCA
* * * *
1188540 AAACCAAAGAATCAATATCATGTTTCCTAATGAGAAAATGTGCTTATGGTGCCTAACCTTGAAAA
1 AAACCAAAGAATCAATAGCATGTGTCCTAATGAGAAAATGTGTTTATGGTGCCTAATCTTGAAAA
1188605 TAATGTGGTT
Statistics
Matches: 696, Mismatches: 125, Indels: 39
0.81 0.15 0.05
Matches are distributed among these distances:
774 26 0.04
775 85 0.12
776 207 0.30
777 85 0.12
778 84 0.12
779 154 0.22
780 53 0.08
781 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (774 bp):
AAACCAAAGAATCAATAGCATGTGTCCTAATGAGAAAATGTGTTTATGGTGCCTAATCTTGAAAA
GAATAGGGATTATTATGAGAATCCATGTTTAGCATATTTAAGAGATAAACTCTGATTCTACGAAA
AATGATGGTAAAAAAAACTTCTTTACAAAGACAAACCATCAATGTCATGTATCCCAATGAGGACT
TTTGGTGTCCAATCATGAAAACAATAAAGACTTACTAGAATCCATGTTTACCTCATTTCAGCGAT
GAAATTTAATCTTAAGGAAAATAGGCTAAAGAAAAAATATTCTTACAAAACAAAAGCATCAATAT
CGATAAAGAGAACGTGTTTATATGCCCAATCATGAAAAGATAGACATTACTACGACAACCCAAGT
TTATTTCATTTGAGGGACAAACTTTGATTCTATCGAAAATAATGGAAAGAAAAGTTTTTCTTGTA
ACACTAAAGCATCAATGTCAGATATCCCAATGAAAGGAACGTGTTTTTGGTTTCCAATCTCAAAA
AGAATGAAGATTATTATAGAAATCCATGTTTGTCTCATTAAAGAGATGAACATTGATTTTAAGGA
AAATAAGGCAAAAAAAAGCTTTCCTCGCAAAAAGCAAAACATCAATATCATGTACCCTAATAGGA
AGAATATGTATATGGTGCCCAATCATAAAAAGAATGAAGATCATTACTAGAAGCCATGTTTATCT
CATTTGAGGCACGAACTTAGACTCTACGAAAAATGATGGGAAAAAAAGCCTTTCCAGCA
Found at i:1189160 original size:20 final size:20
Alignment explanation
Indices: 1189135--1189176 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1189125 ATAATAATTG
1189135 TTCACTTATGTATCGATACA
1 TTCACTTATGTATCGATACA
1189155 TTCACTTATGTATCGATACA
1 TTCACTTATGTATCGATACA
1189175 TT
1 TT
1189177 GATTTGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (20 bp):
TTCACTTATGTATCGATACA
Found at i:1192308 original size:150 final size:150
Alignment explanation
Indices: 1192043--1192452 Score: 490
Period size: 150 Copynumber: 2.7 Consensus size: 150
1192033 TATCCCTAGG
*
1192043 GGCATTTTCA-TAATTTTCTAAAATCGAGTCCTAGGTTATCACTAGGTCCACTTCTATGCCGAAG
1 GGCATTTT-AGTAATTTTCTAAAATCGAGTCCTAGGTTATCACTAGGTCCGCTTCTATGCCGAAG
* * * * * **
1192107 GTATACGTTTAGGATAGGTTCA-ACTTTTACCTTTTTTAGTCCTTTGGGGTTACC-GAGATACTT
65 GTGTAAGTTTAGGATAAGTTCATCCCTTTACC-TTTTTAGTCCTTTAAGGTTACCAG-GATACTT
* *
1192170 TTACGTCA-AAGGTTTCCCCTAAA
128 TTACGT-AGAAGGTATCCCATAAA
* * * *
1192193 GGCATTTTAGTAATTTTCCAAAATCGAGTCCTATGTTATCAC-CGAGTCCGCTTCTATGCCAAAG
1 GGCATTTTAGTAATTTTCTAAAATCGAGTCCTAGGTTATCACTAG-GTCCGCTTCTATGCCGAAG
* *
1192257 GTGTAAGTTTAGGATAAGTTCATCCCTTTACCTTTTAAGTCCTTTAAGGTTATCAGGATACTTTT
65 GTGTAAGTTTAGGATAAGTTCATCCCTTTACCTTTTTAGTCCTTTAAGGTTACCAGGATACTTTT
*
1192322 ACGTAGAAGGTATCCCATAAG
130 ACGTAGAAGGTATCCCATAAA
* * * * * *
1192343 GGCATTTTAGTAATTTTTTAAAATTGAGTTCTAGGTCATTACTAGGTCCGCTTCTATACCGAAGG
1 GGCATTTTAGTAATTTTCTAAAATCGAGTCCTAGGTTATCACTAGGTCCGCTTCTATGCCGAAGG
* * *
1192408 TGTATGTTTAGGA-CAGCTTCATCCCTATACCTTTTTAGTCCTTTA
66 TGTAAGTTTAGGATAAG-TTCATCCCTTTACCTTTTTAGTCCTTTA
1192453 GGGGTATAAG
Statistics
Matches: 222, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
149 5 0.02
150 208 0.94
151 9 0.04
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (150 bp):
GGCATTTTAGTAATTTTCTAAAATCGAGTCCTAGGTTATCACTAGGTCCGCTTCTATGCCGAAGG
TGTAAGTTTAGGATAAGTTCATCCCTTTACCTTTTTAGTCCTTTAAGGTTACCAGGATACTTTTA
CGTAGAAGGTATCCCATAAA
Found at i:1192686 original size:132 final size:132
Alignment explanation
Indices: 1192347--1192716 Score: 463
Period size: 131 Copynumber: 2.8 Consensus size: 132
1192337 CATAAGGGCA
* * * * * *
1192347 TTTTAGTAATTTTTTAAAATTGAGTTCTAGGTCATTACTAGGTCCGCTTCTATACCGAAGGTGTA
1 TTTT-GTAATTTTTTAAAATAGAATCCTAGGTCATTACCAGGTCTGCTTCTATGCCGAAGGTGTA
* * * * *
1192412 TGTTTAGGACAGCTTCATCCCTATACCTTTTTAGTCCTTTAGGGGTATAAGTTTATCCCTAGGGG
65 TGTTTAGGATAGATTCATCCCTTTACCTTTTTAGTCCTTTAGGCGTATAAGTTTAACCCTAGGGG
*
1192477 TAT
130 TAC
* ** * * * *
1192480 TTTTATAA-TTTCCAAAATAAAATCCTAGGTCATTTCCGGGTCTGCTTTTATGCCGAAGGTGTAT
1 TTTTGTAATTTTTTAAAATAGAATCCTAGGTCATTACCAGGTCTGCTTCTATGCCGAAGGTGTAT
* * * *
1192544 GTTTAGGATAGGTTCATCCTTTTACCGTTTTAGTCCTTTAGGCGTTTAAGTTTAACCCTAGGGGT
66 GTTTAGGATAGATTCATCCCTTTACCTTTTTAGTCCTTTAGGCGTATAAGTTTAACCCTAGGGGT
1192609 AC
131 AC
* * * *
1192611 TTTTGTAATTTTTTAAAATCGAATCCTAGGTCATCACCAGGTCTGCTTCTCTGCCGAAGGTGTAC
1 TTTTGTAATTTTTTAAAATAGAATCCTAGGTCATTACCAGGTCTGCTTCTATGCCGAAGGTGTAT
*
1192676 GTTTAAGATAGATTCATCCCTTTACCTTTTTAAGTCCTTTA
66 GTTTAGGATAGATTCATCCCTTTACCTTTTT-AGTCCTTTA
1192717 TGGTTACCAG
Statistics
Matches: 198, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
131 109 0.55
132 76 0.38
133 13 0.07
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (132 bp):
TTTTGTAATTTTTTAAAATAGAATCCTAGGTCATTACCAGGTCTGCTTCTATGCCGAAGGTGTAT
GTTTAGGATAGATTCATCCCTTTACCTTTTTAGTCCTTTAGGCGTATAAGTTTAACCCTAGGGGT
AC
Found at i:1199321 original size:20 final size:21
Alignment explanation
Indices: 1199296--1199349 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
1199286 CATTTAAAAA
1199296 ATGTATTGATACATTCACTT-
1 ATGTATTGATACATTCACTTG
*
1199316 ATGTATCGATACATTCACTTG
1 ATGTATTGATACATTCACTTG
*
1199337 TTGTATTGATACA
1 ATGTATTGATACA
1199350 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
ATGTATTGATACATTCACTTG
Found at i:1201528 original size:20 final size:20
Alignment explanation
Indices: 1201499--1201550 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1201489 TACAAGCCAA
* ** *
1201499 TGTATTGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
1201519 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
1201538 TGTATCGATACAA
1 TGTATCGATACAA
1201551 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:1201556 original size:19 final size:18
Alignment explanation
Indices: 1201499--1201556 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
1201489 TACAAGCCAA
* *
1201499 TGTATTGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
1201519 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1201538 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1201557 CTACTGCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.59
20 11 0.34
21 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1203626 original size:21 final size:20
Alignment explanation
Indices: 1203602--1203644 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1203592 GACTAGTGTG
*
1203602 GGGACTGCCTAGTTGCGACCT
1 GGGACTGCC-AGTCGCGACCT
* *
1203623 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCAGTCGCGACCT
1203643 GG
1 GG
1203645 TGGTGATGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.12, C:0.28, G:0.42, T:0.19
Consensus pattern (20 bp):
GGGACTGCCAGTCGCGACCT
Found at i:1204103 original size:13 final size:13
Alignment explanation
Indices: 1204085--1204122 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1204075 ATAATCCCCC
1204085 TGTATCGATACAG
1 TGTATCGATACAG
*
1204098 TGTATCGATACAT
1 TGTATCGATACAG
1204111 TGTATCGATACA
1 TGTATCGATACA
1204123 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1206254 original size:15 final size:15
Alignment explanation
Indices: 1206234--1206264 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1206224 ATTTCGTTTG
*
1206234 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1206249 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1206264 G
1 G
1206265 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1210336 original size:20 final size:20
Alignment explanation
Indices: 1210311--1210362 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1210301 TACAAGCCAA
** *
1210311 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
1210331 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
1210350 TGTATCGATACAA
1 TGTATCGATACAA
1210363 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:1210368 original size:19 final size:18
Alignment explanation
Indices: 1210311--1210368 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
1210301 TACAAGCCAA
*
1210311 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
1210331 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1210350 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1210369 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1217627 original size:153 final size:151
Alignment explanation
Indices: 1217407--1217852 Score: 457
Period size: 153 Copynumber: 2.9 Consensus size: 151
1217397 TGATTCTATA
* ** * * * * *
1217407 AAAAATACCAAAATGC-CTTGGGTATACCTTCGATGTGAAAATATC-CTAGTAACTTTAAAAGAC
1 AAAATTACCAAAATGCTCTTGGGTATACCTTCGACATGAAAGTATCTCGA-TAACCTTAAAGGAA
1217470 ACAAAAAGATTGTAAAAGGTCAAACCTATCCTATATGTACACCTTTGGCATAAAAGCGACCCGAT
65 ACAAAAAGATTGTAAAAGGT-AAACCTATCCTA-ATGTACACCTTTGGCATAAAAGCGACCCGAT
* ** *
1217535 GGCAACTTAGGATTTGGTTGTAGG
128 GGCAACCTAGGATTCAGTTCTAGG
*
1217559 AAAATTACCAAAATGCTCTTGGGTATACCTTCGACATGAAAGTATCTCGAAAACCTTAAAGGAAA
1 AAAATTACCAAAATGCTCTTGGGTATACCTTCGACATGAAAGTATCTCGATAACCTTAAAGGAAA
** * * * * * * *
1217624 CAAAAAGATCATTAAAGGTTGAATCTATCCTAAGTGTAGACTTTTGGCATAAAAGC-AACCTAGT
66 CAAAAAGATTGTAAAAGG-TAAACCTATCCTAA-TGTACACCTTTGGCATAAAAGCGACCCGA-T
* * * * *
1217688 GACTACCTAAGACTCAGTTCTATG
128 GGCAACCTAGGATTCAGTTCTAGG
* * * * * *
1217712 AAAATTACCAAAAAGCTGTTAGGTATACCTTCGACATGAAAGTATCTAGGTAACCTTAAAGGATA
1 AAAATTACCAAAATGCTCTTGGGTATACCTTCGACATGAAAGTATCTCGATAACCTTAAAGGAAA
* * * * *
1217777 CGAAAGGATTGTAAAAGGTTAACCTATCCTACATGTACACCTTTGGCATAAAAGTGACCCGTTGG
66 CAAAAAGATTGTAAAAGGTAAACCTATCCTA-ATGTACACCTTTGGCATAAAAGCGACCCGATGG
*
1217842 CGACCTAGGAT
130 CAACCTAGGAT
1217853 CGTAAAAAAT
Statistics
Matches: 236, Mismatches: 51, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
152 60 0.25
153 173 0.73
154 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (151 bp):
AAAATTACCAAAATGCTCTTGGGTATACCTTCGACATGAAAGTATCTCGATAACCTTAAAGGAAA
CAAAAAGATTGTAAAAGGTAAACCTATCCTAATGTACACCTTTGGCATAAAAGCGACCCGATGGC
AACCTAGGATTCAGTTCTAGG
Found at i:1218168 original size:29 final size:29
Alignment explanation
Indices: 1218136--1218204 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
1218126 ATGTGTTAAC
1218136 CCCTAAACTTTTCAAAATTACACTTTGAA
1 CCCTAAACTTTTCAAAATTACACTTTGAA
* *
1218165 CCCTAAACTTTTCATAATTACACTTTGAC
1 CCCTAAACTTTTCAAAATTACACTTTGAA
*
1218194 CCCAAAACTTT
1 CCCTAAACTTT
1218205 AAAATGCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTTTCAAAATTACACTTTGAA
Found at i:1221796 original size:3 final size:3
Alignment explanation
Indices: 1221788--1221825 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1221778 CCAAGAGGAA
1221788 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1221826 AGAGCAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:1226686 original size:19 final size:19
Alignment explanation
Indices: 1226662--1226705 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1226652 TTTTTTTGGG
**
1226662 GAAAAAAGTTGTTAAAAAA
1 GAAAAAAGTAATTAAAAAA
1226681 GAAAAAAGTAATTAAAAAA
1 GAAAAAAGTAATTAAAAAA
1226700 GAAAAA
1 GAAAAA
1226706 GAGAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (19 bp):
GAAAAAAGTAATTAAAAAA
Found at i:1227166 original size:20 final size:20
Alignment explanation
Indices: 1227128--1227167 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1227118 AAAGAAGGAG
* *
1227128 GAAGAAGAAGGAAGGAAAAA
1 GAAGAAGAAGAAAGAAAAAA
*
1227148 GAAGAAGACGAAAGAAAAAA
1 GAAGAAGAAGAAAGAAAAAA
1227168 AACAAAATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (20 bp):
GAAGAAGAAGAAAGAAAAAA
Found at i:1233242 original size:158 final size:157
Alignment explanation
Indices: 1233012--1238095 Score: 958
Period size: 158 Copynumber: 32.1 Consensus size: 157
1233002 TCATCTTCAT
** * * * * *
1233012 ATTAGGATACACGATATTGATATTTTGGTTTCATAGGAAAGGCATTTTTCCCACTAATTTTTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGG-ATTTTTTCCACCAATTTTTATA
* * *
1233077 AAGTCTAAGTTTGTGCCTCAAATGCA-ACAAACATGGATTCTAAAAATGATCTTCATTCATTTTA
65 AAGTCTAAGTTCGTGCCTCAAATG-AGACAAACATGGATTCTAATAATGATCTTCATTCATTTTG
1233141 TGATTAGGCACTATAAACACATTCTCCTC
129 TGATTAGGCACTATAAACACATTCTCCTC
* *
1233170 ATTAGGATACACGATATTGATGCTTTGGTTTCGCAAAAAAGGATTTATTTCCACCAATTTTTATA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT-TTTCCACCAATTTTTATA
* * * * *
1233235 AACTCTAAGTTCGTGCCTCAAATGAGACAAACTTGGATTCTAGTAATGATCCTCATT-TTTTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
*
1233299 GATAAGGCACTATAAACACATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * * ** ** ** * *** * *
1233327 ATTAGGATAAATGACATTGATTATTTTCTTTTGCATTGAAATCTTTTCTTTGC-CCTATTTTCCT
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACA-AGAAAGGATTT-TTTCCACCAATTTT--T
* * * * * * * * * * ** * * *
1233391 -TAAAATCAAAGTTCATCCCTTAAATAAGACTAGCTTTGATTCTCGTAA-CAGTCTCCATTCCTT
62 ATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCATT
*** * * * * * *
1233454 TCAAGATTGGGAACCAAAAACGCATAC-CCTTC
126 TTGTGATTAGGCACTATAAACACATTCTCC-TC
* * * * * ** *
1233486 ATTAAGATACATGACT-TTGATCCTTTGATGTT-GCAAGAAAAGCTTTTCTTTCCA-CTATTTTT
1 ATTAGGATACACGA-TATTGATGCTTTGGT-TTCACAAG-AAAGGATTT-TTTCCACCAATTTTT
* * * * * * * * * * **
1233548 GATAGAA-TC-ATAGTTTGT-CTCTTAAATAAGACAAACACGAATACTCACACTAATCCCCATTC
62 -ATA-AAGTCTA-AGTTCGTGC-CTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTC
* * * * * *
1233610 -TTTTCGGGATTAGGCACCATAAACATAGTCTTCTT
123 ATTTT-GTGATTAGGCACTATAAACACATTCTCCTC
* * * * *
1233645 AGTAGGATACACGATATTTATGTTTTGGTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGG-ATTTTTTCCACCAATTTTTATA
* * * * * *
1233710 AAGTCTATGTTCGTGCCTCAAAAGCGACAAACATGGATTCTACTAATGATATTCATTCAATTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
*
1233775 GATTAGGCACTTTAAACACATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * * * * * **
1233803 ATTTGGATACACGATATTCATGCTTTGGTTTCACAACAAAGGCTTTCTTCTCAACAA-TTTTAGG
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTTTTTC-CACCAATTTTTATA
* * * *
1233867 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACTTTGATTCTAGTAATGATCTTCATTCTTTTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* **
1233932 AAGAAGGCACTATAAACACATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * * * ** * *** * *
1233960 ATTAGGATAAATGACATTGATGATTTTTTTTTGCAC-TGAAATCTTTTCTTTGC-CCTATTATCT
1 ATTAGGATACACGATATTGATG-CTTTGGTTT-CACAAGAAAGGATTT-TTTCCACCAATT-T-T
* * * * ** * * ** ** * *
1234023 T-TAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCAATTCTTGTAA-CAGTCTCCATTC-T
61 TATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCAT
* * * *
1234085 TTTGAAGATTGGGAAGCCA-AAACACATTGC-CCTC
125 TTTG-TGATTAGGCA-CTATAAACACATT-CTCCTC
* * * * * * ***
1234119 GTTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTCCTTTTTGCC-ATTTTTGA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT--TTTCCACCAATTTTT-A
** ** * * * * * ** * * **
1234183 TAGAA-TAAAAGTTTAT-CTCTTAAATCAGATAAACATGAATACTAGCACTAATCCCCATTC-TT
63 TA-AAGTCTAAGTTCGTGC-CTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATT
* * * * *
1234245 TTCAG-GATTAGGCACCATAAACATAGTCTTCTT
126 TT--GTGATTAGGCACTATAAACACATTCTCCTC
** * ** * * * * *
1234278 ATTAGGATACATAATATTGATGCTTAGGTTTCGGAACAAAGGCTTTCTTCCCACCAATTTCTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT-TTTCCACCAATTTTTATA
* * * * * *
1234343 AAGTCTAAGCTCGTGCATCAAATAAGACAAACTTGGACTCTAGTAATGATC-T-ATTCATTTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* *
1234406 GATTAGGGACAATAAACACATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * * * * ** ** * * *
1234434 GTTAGGATAAATGATACTGATGATTTTCTTTTGCATGGAA--ATTTTTT-CATTGCCCTATTTTT
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTTTTTCCA----CC-AATTTT
* * * * * * * * * * * * * *
1234496 TCTTAAAATCGAAGTTCATCCCTTAAATAAGAGAAGCATCGATTCTCATAA-CAGTCTCCATT-T
61 T-ATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCA
* * * * * *
1234559 TTTTGAAGAATGGGAACCAATAAA-A-ATAC-CCTTC
124 TTTTG-TGATTAGGCA-CTATAAACACATTCTCC-TC
* * * * * * * * * ** * *
1234593 AATAGGGTGCATGACATAGATGCTTTGGTGTCGCGAGAAAAGCTTTTCTTTCCTCC-ATTTTTGG
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAG-AAAGGATTT-TTTCCACCAATTTTT-A
* * * * * ** * ** * **
1234657 TAAAATCAAAGTTTGT-CTCTTAAATAAGACAAAC-TTTATTACTCATGCT-AACCCCATTC-TT
63 TAAAGTCTAAGTTCGTGC-CTCAAATGAGACAAACATGGATT-CTAATAATGATCTTCATTCATT
** * * * *
1234718 TTCAAGATTAGGCACCATAAACATAGTCTTCTC
126 TT-GTGATTAGGCACTATAAACACATTCTCCTC
* * * * * * *
1234751 ATTAGGATACACGATATTGATGCATTGGTTCCGCAACAAAGGCTTTCTTCCCACAAATTTTTGA-
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT-TTTCCACCAATTTTT-AT
** * * *
1234815 AAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGGATTCTATTAATAATCTTCATTCATTTTG
64 AAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTG
*
1234880 TGATTAGGGA-TAATAAACACATTCTCCTC
129 TGATTAGGCACT-ATAAACACATTCTCCTC
* * * ** ** * *** * *
1234909 ATTAGGATAAATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGC-CCTATTTTCCT
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACA-AGAAAGGATTT-TTTCCACCAATTTT--T
* * ** * * * * ** ** *
1234973 -TAAAATCAAAGTTTATCCCTTAAATAAGACAAGCATCGG-TTCTTGTAA-GAGTCACCACTC-T
62 ATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACAT-GGATTCTAATAATGA-TCTTCATTCAT
** * * * * * **
1235034 TTTCAAGATTGGGAACCAAAAACAGAAAC-CCTTC
125 TTT-GTGATTAGGCACTATAAACACATTCTCC-TC
* * * * * * * ** * *
1235068 TTTAGGATACATGACATTGATGCTCTGGTGTCGGGCGA-AAAGCTTTTCTTTCCA-CAGTATTTG
1 ATTAGGATACACGATATTGATGCTTTGGTTTC--ACAAGAAAGGATTT-TTTCCACCAAT-TTTT
* * * * * * * * * * **
1235131 ATAGAA-TCAAAGTTTGT-CTCACAAATAAGACAAAACATGAATACTCACACTAATCCCCATTC-
62 ATA-AAGTCTAAGTTCGTGC-CTCAAATGAGAC-AAACATGGATTCTAATAATGATCTTCATTCA
* * * * **
1235193 TTTTCAG-GATTAGGCACCATAAATATAGTCTTTTC
124 TTTT--GTGATTAGGCACTATAAACACATTCTCCTC
** * *
1235228 ATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGGCATTTTTCCCACCAATTTTTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGG-ATTTTTTCCACCAATTTTTATA
* * * * * * *
1235293 AAGTGTATGTTCGTGTCTTAAATGTGACAAACATGGATTCTACTAATGATCTTCATTCAATTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* *
1235358 GATTAGGCACCATAAACATATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * ** * *
1235386 TTTAGGATACACGATATTGATGCTTCGGTTTTGCAACAAAGGCTTTTTTCCCACCAATTTTTATA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTTTTT-CCACCAATTTTTATA
* ** * * * *
1235451 AGGTCTAAGCCCATGCCTCAAATGAG-CAAACTTGGATTCTAGTAATGATCTTCTTTCATTTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* * **
1235515 GATTAGGGACAATAAACATGTTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * * ** ** * ** * *
1235543 ATTAGGATAAATGATATTGATGATTTTTATTTGCA-TGGATA-TCTTTTCTTTC-CCTATTTTCC
1 ATTAGGATACACGATATTGATG-CTTTGGTTT-CACAAGAAAGGATTTT-TTCCACCAATTTT--
* * * * ** * * ** ** * *
1235605 T-TAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCAATTCTTGTAA-CAGTCTCCATTC-T
61 TATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCAT
* * * *
1235667 TTTGAAGATTGGGAAGCCA-AAACACATTGC-CCTC
125 TTTG-TGATTAGGCA-CTATAAACACATT-CTCCTC
* * * * * ***
1235701 ATTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTCCTTTTTGCC-ATTTTTGA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT--TTTCCACCAATTTTT-A
** ** * * * * * ** * * **
1235765 TAGAA-TAAAAGTTTAT-CTCTTAAATCAGATAAACATGAATACTAGCACTAATCCCCATTC-TT
63 TA-AAGTCTAAGTTCGTGC-CTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATT
* * * * *
1235827 TTCAG-GATTAGGCACCATAAACATAGTCTTCTT
126 TT--GTGATTAGGCACTATAAACACATTCTCCTC
** * ** * * * * *
1235860 ATTAGGATACATAATATTGATGCTTAGGTTTCGGAACAAAGGCTTTCTTCCCACCAATTTCTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT-TTTCCACCAATTTTTATA
* * * * * *
1235925 AAGTCTAAGCTCGTGCATCAAATAAGACAAACTTGGACTCTAGTAATGATC-T-ATTCATTTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* *
1235988 GATTAGGGACAATAAACACATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * * * * ** ** * * *
1236016 GTTAGGATAAATGATACTGATGATTTTCTTTTGCATGGAA--ATTTTTT-CATTGCCCTATTTTT
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTTTTTCCA----CC-AATTTT
* * * * * * * * * * * * * *
1236078 TCTTAAAATCGAAGTTCATCCCTTAAATAAGAGAAGCATCGATTCTCATAA-CAGTCTCCATT-T
61 T-ATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCA
* * * * * *
1236141 TTTTGAAGAATGGGAACCAATAAA-A-ATAC-CCTTC
124 TTTTG-TGATTAGGCA-CTATAAACACATTCTCC-TC
* * * * * * * * * ** * *
1236175 AATAGGGTGCATGACATAGATGCTTTGGTGTCGCGAGAAAAGCTTTTCTTTCCTCC-ATTTTTGG
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAG-AAAGGATTT-TTTCCACCAATTTTT-A
* * * * * ** * ** * **
1236239 TAAAATCAAAGTTTGT-CTCTTAAATAAGACAAAC-TTTATTACTCATGCT-AACCCCATTC-TT
63 TAAAGTCTAAGTTCGTGC-CTCAAATGAGACAAACATGGATT-CTAATAATGATCTTCATTCATT
** * * * *
1236300 TTCAAGATTAGGCACCATAAACATAGTCTTCTC
126 TT-GTGATTAGGCACTATAAACACATTCTCCTC
* * * * * * *
1236333 ATTAGGATACACGATATTGATGCATTGGTTCCGCAACAAAGGCTTTCTTCCCACAAATTTTTGA-
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT-TTTCCACCAATTTTT-AT
** * * *
1236397 AAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGGATTCTATTAATAATCTTCATTCATTTTG
64 AAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTG
*
1236462 TGATTAGGGA-TAATAAACACATTCTCCTC
129 TGATTAGGCACT-ATAAACACATTCTCCTC
* * * ** ** * *** * *
1236491 ATTAGGATAAATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGC-CCTATTTTCCT
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACA-AGAAAGGATTT-TTTCCACCAATTTT--T
* * ** * * * * * ** ** *
1236555 -TAAAATCAAAGTTTATCCCTTAAATAAGACAAGCATCGATTCTTGTAA-GAGTCACCACTC-TT
62 ATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCATT
** * * * * * **
1236617 TTCAAGATTGGGAACCAAAAACAGAAAC-CCTTC
126 TT-GTGATTAGGCACTATAAACACATTCTCC-TC
* * * * * * * ** * *
1236650 TTTAGGATACATGACATTGATGCTCTGGTGTCGGGCGA-AAAGCTTTTCTTTCCA-CAGTATTTG
1 ATTAGGATACACGATATTGATGCTTTGGTTTC--ACAAGAAAGGATTT-TTTCCACCAAT-TTTT
* * * * * * * * * **
1236713 ATAGAA-TCAAAGTT--TGTCTCATAAATAAGACAAAACATGAATACTCACACTAATCCCCATTC
62 ATA-AAGTCTAAGTTCGTGCCTC--AAATGAGAC-AAACATGGATTCTAATAATGATCTTCATTC
* * * * **
1236775 -TTTTCAG-GATTAGGCACCATAAATATAGTCTTTTC
123 ATTTT--GTGATTAGGCACTATAAACACATTCTCCTC
** * *
1236810 ATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGGCATTTTTCCCACCAATTTTTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGG-ATTTTTTCCACCAATTTTTATA
* * * * * * *
1236875 AAGTGTATGTTCGTGTCTTAAATGTGACAAACATGGATTCTACTAATGATCTTCATTCAATTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* *
1236940 GATTAGGCACCATAAACATATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * ** * *
1236968 TTTAGGATACACGATATTGATGCTTCGGTTTTGCAACAAAGGCTTTTTTCCCACCAATTTTTATA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTTTTT-CCACCAATTTTTATA
* ** * * * *
1237033 AGGTCTAAGCCCATGCCTCAAATGAG-CAAACTTGGATTCTAGTAATGATCTTCTTTCATTTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* * **
1237097 GATTAGGGACAATAAACATGTTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
* * * ** ** * ** * **
1237125 ATTAGGATAAATGATATTGATGATTTTTATTTGCA-TGGATA-TCTTTTCTTTC-CCTGTTTTCC
1 ATTAGGATACACGATATTGATG-CTTTGGTTT-CACAAGAAAGGATTTT-TTCCACCAATTTT--
* * * * * * * ** * *
1237187 T-TAAAATCAAAGTTCAT-CCTTTAAATAAGACAAGCATCGATTCTCGTAA-CAGTCTCCATTC-
61 TATAAAGTCTAAGTTCGTGCC-TCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCA
** * * *
1237248 TTTTCAAGATTGGGAAGCCA-AAACACATTC-CCTTC
124 TTTT-GTGATTAGGCA-CTATAAACACATTCTCC-TC
* * * * * ** *
1237283 ATTA-GATATATGACATTGATGCTTTGGTGTCGTAGAA-AAAGCTTTTCTTTCCA-CTATTTTTG
1 ATTAGGATACACGATATTGATGCTTTGGTTTC--ACAAGAAAGGATTT-TTTCCACCAATTTTT-
* * * * * ** * * * * *
1237345 ATAGAA-TCAAAGTTTGT-CTCTTAAATAAGACAAACATGAAAACTCACACTAATC-CCAATTC-
62 ATA-AAGTCTAAGTTCGTGC-CTCAAATGAGACAAACATGGATTCTAATAATGATCTTC-ATTCA
* * * * *
1237406 TTTTCAG-GATTAGGCACCATAAACATAGTATTCTC
124 TTTT--GTGATTAGGCACTATAAACACATTCTCCTC
** * * * * * *
1237441 ATTAGG-TACGTGATATTGATTCTTTGGTTTCACAACAAAGGCTTTCTTGCCGCCAATTTTTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT-TTTCCACCAATTTTTATA
* * * * * * *
1237505 AAGTGTAAGTTCGTGCTTCAAATGAGACAAACTTGGATTCTAGTAACGATCTTCATTTATTTTCT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
* * *
1237570 GATTAGGCACAAAAAACACATTCTCCTT
130 GATTAGGCACTATAAACACATTCTCCTC
* * * * ** ** * ** ** *
1237598 ATTATGATAAATGATATTGATGATTTTTTTTTGCATGGAAA-TCTTTTTTTTACCCTATTTTCCT
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACA-AGAAAGGATTTTTTCCA-CCAATTTT--T
* * * * * * * * ** * ** *
1237662 -TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAA-CAGTCGCCCTTC-TT
62 ATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGA-TCTTCATTCATT
** * * * *
1237724 TTCAAGATTGGGAAGCCA-AAACACATTAC-CTTC
126 TT-GTGATTAGGCA-CTATAAACACATT-CTCCTC
* * * * * * * * ** *
1237757 ATTAGGATAAATGACATTGTTGCTTTTGTATT-GCAAGAAAAGCATTTCTTCC-CTCTGCTTTTG
1 ATTAGGATACACGATATTGATGCTTTGGT-TTCACAAG-AAAGGATTTTTTCCAC-C-AATTTTT
* * * * * * ** * *** ** *
1237820 GTAGAA-TCCAAGTTTGT-CTCTTAAAT-ATGATAAACATGAATTCCCACACCAATCCCCATTCC
62 ATA-AAGTCTAAGTTCGTGC-CTCAAATGA-GACAAACATGGATTCTAATAATGATCTTCATTCA
* *
1237882 TTTCAG-GATTAGGCATTATAAACACATTCTCCTC
124 TTT-TGTGATTAGGCACTATAAACACATTCTCCTC
* * * * * * * *
1237916 ACTAGGATACATGATATTGATGCTTTGGGTTCGCAACAAAGGCTTTATTCCCACCAATTTTTGTA
1 ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTT-TTTCCACCAATTTTTATA
* * * * * * *
1237981 AAGTGTAAGTTTGCGCCTCATATGAGACAAACATGAATTCTAGTAATGATCTTCATTCTTTTTGT
65 AAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGT
*
1238046 GATAAGGCACTATAAACACATTCTCCTC
130 GATTAGGCACTATAAACACATTCTCCTC
*
1238074 ATTAGGATAAACGATATTGATG
1 ATTAGGATACACGATATTGATG
1238096 ATTTTCTTTT
Statistics
Matches: 3544, Mismatches: 1113, Indels: 538
0.68 0.21 0.10
Matches are distributed among these distances:
152 4 0.00
153 4 0.00
154 6 0.00
155 3 0.00
156 150 0.04
157 683 0.19
158 1383 0.39
159 1043 0.29
160 227 0.06
161 27 0.01
162 6 0.00
163 6 0.00
164 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (157 bp):
ATTAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGATTTTTTCCACCAATTTTTATAA
AGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTGTG
ATTAGGCACTATAAACACATTCTCCTC
Found at i:1234158 original size:633 final size:632
Alignment explanation
Indices: 1232946--1234442 Score: 2067
Period size: 633 Copynumber: 2.4 Consensus size: 632
1232936 ACCCAACTAT
* * *
1232946 CAAACAAGAATACTCACACTAATCGCCATTCTTTCCAGGATTAGGCACCGTAAACATCA-TCTTC
1 CAAACAAGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT-AGTCTTC
* * * * *
1233010 ATATTAGGATACACGATATTGATATTTTGGTTTCATAGGAAAGGCATTTTTCCCACTAATTTTTG
65 TTATTAGGATACACGATATTGATGTTTTGGTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTG
* * * *
1233075 TAAAGTCTAAGTTTGTGCCTCAAATGCAACAAACATGGATTCTAAAAATGATCTTCATTCATTTT
130 TAAAGTCTAAGTTCGTGCCTCAAAAGCGACAAACATGGATTCTAATAATGAT-TTCATTCATTTT
* * *
1233140 ATGATTAGGCACTATAAACACATTCTCCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCA
194 GTGATTAGGCACTATAAACACATTCTCCTCATTAGGATACACGATATTCATGCTTTGGTTTCACA
* *
1233205 AAAAAGGATTTATTTCCACCAATTTTTATAAACTCTAAGTTCGTGCCTCAAATGAGACAAACTTG
259 AAAAAGGATTTATTTCCAACAATTTTTAGAAACTCTAAGTTCGTGCCTCAAATGAGACAAACTTG
* *
1233270 GATTCTAGTAATGATCCTCATTTTTTTGTGATAAGGCACTATAAACACATTCTCCTCATTAGGAT
324 GATTCTAGTAATGATCCTCATTTTTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGAT
* * *
1233335 AAATGACATTGATTATTTTCTTTTGCATTGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAA
389 AAATGACATTGATGATTTTCTTTTGCACTGAAATCTTTTCTTTGCCCTATTATCCTTAAAATCAA
* * **
1233400 AGTTCATCCCTTAAATAAGACTAGCTTTGATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGGG
454 AGTTCATCCCTTAAATAAGACAAGCATCAATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGGG
* * **
1233465 AACCAAAAACGCATACCCTTCATTAAGATACATGACTTTGATCCTTTGATGTTGCAAGAAAAGCT
519 AACCAAAAACACATACCCTTCATTAAGATACATGACATTGATCCTTTGATGTCACAAGAAAAGCT
* * * * *
1233530 TTTCTTTCCACTATTTTTGATAGAATCATAGTTTGTCTCTTAAATAAGA
584 TTCCTTTCCACCATTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGA
* *
1233579 CAAACACGAATACTCACACTAATCCCCATTCTTTTCGGGATTAGGCACCATAAACATAGTCTTCT
1 CAAACAAGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCT
* *
1233644 TAGTAGGATACACGATATTTATGTTTTGGTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGT
66 TATTAGGATACACGATATTGATGTTTTGGTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGT
* * *
1233709 AAAGTCTATGTTCGTGCCTCAAAAGCGACAAACATGGATTCTACTAATGATATTCATTCAATTTG
131 AAAGTCTAAGTTCGTGCCTCAAAAGCGACAAACATGGATTCTAATAATGAT-TTCATTCATTTTG
* *
1233774 TGATTAGGCACTTTAAACACATTCTCCTCATTTGGATACACGATATTCATGCTTTGGTTTCACAA
195 TGATTAGGCACTATAAACACATTCTCCTCATTAGGATACACGATATTCATGCTTTGGTTTCACAA
* * * * * *
1233839 CAAAGGCTTT-CTTCTCAACAA-TTTTAGGAAGTCTAAGTTCGTGCCTCAAATGAGACAAACTTT
260 AAAAGGATTTATTTC-CAACAATTTTTAGAAACTCTAAGTTCGTGCCTCAAATGAGACAAACTTG
*
1233902 GATTCTAGTAATGATCTTCATTCTTTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGA
324 GATTCTAGTAATGATCCTCATT-TTTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGA
* *
1233967 TAAATGACATTGATGATTTTTTTTTGCACTGAAATCTTTTCTTTGCCCTATTATCTTTAAAATCA
388 TAAATGACATTGATGATTTTCTTTTGCACTGAAATCTTTTCTTTGCCCTATTATCCTTAAAATCA
* * * *
1234032 AAGTTCATCCCTTGAATAAGACAAGCATCAATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGG
453 AAGTTCATCCCTTAAATAAGACAAGCATCAATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGG
* * * * *
1234097 GAAGCC-AAAACACATTGCCC-TCGTTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAA
518 GAA-CCAAAAACACA-TACCCTTCATTAAGATACATGACATTGATCCTTTGATGTCACAAGAAAA
*** *
1234160 GCTTTCCTTTTTGCCATTTTTGATAGAATAAAAGTTTATCTCTTAAATCAGA
581 GCTTTCCTTTCCACCATTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGA
* *
1234212 TAAACATGAATACT-AGCACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTC
1 CAAACAAGAATACTCA-CACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTC
** * * ** * *
1234276 TTATTAGGATACATAATATTGATGCTTAGGTTTCGGAACAAAGGC-TTTCTTCCCACCAATTTCT
65 TTATTAGGATACACGATATTGATGTTTTGGTTTCACAAGAAAGGCATTT-TTCCCACCAATTTTT
* * * * * * *
1234340 GTAAAGTCTAAGCTCGTGCATCAAATA-AGACAAACTTGGACTCTAGTAATGATCT-ATTCATTT
129 GTAAAGTCTAAGTTCGTGCCTCAAA-AGCGACAAACATGGATTCTAATAATGATTTCATTCATTT
* * *
1234403 TGTGATTAGGGACAATAAACACATTCTCCTCGTTAGGATA
193 TGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATA
1234443 AATGATACTG
Statistics
Matches: 762, Mismatches: 94, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
631 42 0.06
632 68 0.09
633 645 0.85
634 7 0.01
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (632 bp):
CAAACAAGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCT
TATTAGGATACACGATATTGATGTTTTGGTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGT
AAAGTCTAAGTTCGTGCCTCAAAAGCGACAAACATGGATTCTAATAATGATTTCATTCATTTTGT
GATTAGGCACTATAAACACATTCTCCTCATTAGGATACACGATATTCATGCTTTGGTTTCACAAA
AAAGGATTTATTTCCAACAATTTTTAGAAACTCTAAGTTCGTGCCTCAAATGAGACAAACTTGGA
TTCTAGTAATGATCCTCATTTTTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGATAA
ATGACATTGATGATTTTCTTTTGCACTGAAATCTTTTCTTTGCCCTATTATCCTTAAAATCAAAG
TTCATCCCTTAAATAAGACAAGCATCAATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGGGAA
CCAAAAACACATACCCTTCATTAAGATACATGACATTGATCCTTTGATGTCACAAGAAAAGCTTT
CCTTTCCACCATTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGA
Found at i:1234565 original size:475 final size:473
Alignment explanation
Indices: 1233775--1235407 Score: 2030
Period size: 475 Copynumber: 3.4 Consensus size: 473
1233765 TTCAATTTGT
** * * * * * *
1233775 GATTAGGCACTTTAAACACATTCTCCTCATTTGGATACACGATATTCATGCTTTGGTTTCACAAC
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAC
* * * * * *
1233840 AAAGGCTTTCTTCTCAACAATTTTAG-GAAGTCTAAGTTCGTGCCTCAAATGAGACAAACTTTGA
66 AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGGA
* * ** *
1233904 TTCTAGTAATGATCTTCATTCTTTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGATA
131 TTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATA
* * * *
1233969 AATGACATTGATGATTTTTTTTTGCACT-GAAATCTTTTCTTTGCCCTATTATCT-TTAAAATCA
196 AATGATATTGATGATTTTATTTTGCA-TGGAAATCTTTTCTTTGCCCTATTTTTTCTTAAAATCA
* *
1234032 AAGTTCATCCCTTGAATAAGACAAGCATCAATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGG
260 AAGTTCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGG
* * * * *
1234097 GAAGCCAAAACACATTGCCC-TCGTTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAAG
325 GAA-CCAAAA-ACAATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAG
* * * *
1234161 CTTTCCTTTTTGCCATTTTTGATAGAATAAAAGTTTATCTCTTAAATCAGATAAACATGAATACT
388 CTTT-CTTTTT-CCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAAAAACATGAATACT
1234226 AGCACTAATCCCCATTCTTTTCAG
451 A-CACTAATCCCCATTCTTTTCAG
* ** * *
1234250 GATTAGGCACCATAAACATAGTCTTCTTATTAGGATACATAATATTGATGCTTAGGTTTCGGAAC
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAC
* * *
1234315 AAAGGCTTTCTTCCCACCAATTTCTGTAAAGTCTAAGCTCGTGCATCAAATAAGACAAACTTGGA
66 AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGGA
* * *
1234380 CTCTAGTAATGATC-T-ATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCGTTAGGATA
131 TTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATA
* * * * *
1234443 AATGATACTGATGATTTTCTTTTGCATGGAAATTTTTTCATTGCCCTATTTTTTCTTAAAATCGA
196 AATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGCCCTATTTTTTCTTAAAATCAA
* ** * *
1234508 AGTTCATCCCTTAAATAAGAGAAGCATCGATTCTCATAACAGTCTCCATTTTTTTGAAGAATGGG
261 AGTTCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGG
* * * *
1234573 AACCAATAAA-AATACCCTTCAATAGGGTGCATGACATAGATGCTTTGGTGTCGCGAGAAAAGCT
326 AACCAA-AAACAATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAGC-
* * * * * * *
1234637 TTTCTTTCCTCCATTTTTGGTAAAATCAAAGTTTGTCTCTTAAATAAGACAAACTTTATTACT-C
389 TTTCTTT-TTCCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAAAAACATGAATACTAC
*
1234701 ATGCTAA-CCCCATTCTTTTCAA
453 A--CTAATCCCCATTCTTTTCAG
* *
1234723 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCATTGGTTCCGCAAC
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAC
* * *
1234788 AAAGGCTTTCTTCCCACAAATTTTTGAAAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGGA
66 AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGGA
* * * *
1234853 TTCTATTAATAATCTTCATTCATTTTGTGATTAGGGATAATAAACACATTCTCCTCATTAGGATA
131 TTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATA
*
1234918 AATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGCCCTA-TTTTCCTTAAAATCAA
196 AATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGCCCTATTTTTTCTTAAAATCAA
* * * * * *
1234982 AGTTTATCCCTTAAATAAGACAAGCATCGGTTCTTGTAAGAGTCACCACTCTTTTCAAGATTGGG
261 AGTTCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGG
* * * * *
1235047 AACCAAAAACAGAAACCCTTCTTTAGGATACATGACATTGATGCTCTGGTGTCGGGCGAAAAGCT
326 AACCAAAAACA-ATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAGCT
* * **
1235112 TT-TCTTTCCACAGTATTTGATAGAATCAAAGTTTGTCTCACAAATAAGACAAAACATGAATACT
390 TTCT-TTTTC-CA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGA-AAAACATGAATACT
1235176 CACACTAATCCCCATTCTTTTCAG
451 -ACACTAATCCCCATTCTTTTCAG
* * * *
1235200 GATTAGGCACCATAAATATAGTCTTTTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAG
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAC
* * * * * * *
1235265 AAAGGCATTT-TTCCCACCAATTTTTGTAAAGTGTATGTTCGTGTCTTAAATGTGACAAACATGG
66 AAAGGC-TTTCTTCCCACCAATTTTTGTAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGG
* * * * *
1235329 ATTCTACTAATGATCTTCATTCAATTTGTGATTAGGCACCATAAACATATTCTCCTCTTTAGGAT
130 ATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGAT
* *
1235394 ACACGATATTGATG
195 AAATGATATTGATG
1235408 CTTCGGTTTT
Statistics
Matches: 990, Mismatches: 147, Indels: 40
0.84 0.12 0.03
Matches are distributed among these distances:
472 2 0.00
473 153 0.15
474 264 0.27
475 314 0.32
476 60 0.06
477 192 0.19
478 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (473 bp):
GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAC
AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGGA
TTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATA
AATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGCCCTATTTTTTCTTAAAATCAA
AGTTCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGG
AACCAAAAACAATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAGCTT
TCTTTTTCCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAAAAACATGAATACTACACT
AATCCCCATTCTTTTCAG
Found at i:1234641 original size:633 final size:631
Alignment explanation
Indices: 1232946--1234688 Score: 1586
Period size: 633 Copynumber: 2.8 Consensus size: 631
1232936 ACCCAACTAT
* * * *
1232946 CAAACAAGAATACTCACACTAATCGCCATTCTTTCCAGGATTAGGCACCGTAAACATCA-TCTTC
1 CAAACACGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT-AGTCTTC
* * * ** * * ** * *
1233010 ATATTAGGATACACGATATTGATATTTTGGTTTCATAGGAAAGGCATTTTTCCCACTAATTTTTG
65 TTAGTAGGATACACAATATTGATGCTTAGGTTTCACAACAAAGGCATTTTTCCCACCAATTTCTG
* * * * * ** *
1233075 TAAAGTCTAAGTTTGTGCCTCAAATGCA-ACAAACATGGATTCTAAAAATGAT-CTTCATTCATT
130 TAAAGTCTAAGCTCGTGCATCAAAAG-AGACAAACATGGACTCTACTAATGATAC-TCATTCAAT
* * * * * * * *
1233138 TTATGATTAGGCACTATAAACACATTCTCCTCATTAGGATACACGATATTGATGCTTTGGTTTCG
193 TTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATAAACGATACTCATGATTTGCTTTCA
* * * * * * * * * * *
1233203 CAAAAAAGGATTTATTTCCACCAATTTTTATAAACTCTAAGTTCGTGCCTCAAATGAGACAAACT
258 CAACAAAGGCTTTCTTCCCAACAA-TTTTAGAAA-TCGAAGTTCATCCCTCAAATAAGACAAACA
* * * * * * * *
1233268 TGGATTCTAGTAATGATC-CTCATT-TTTTTGTGATAAGGCACTATAAACACATTCTCCTCATTA
321 TCGATTCTAGTAAAGATCTC-CATTCTTTTTGTAAGAAGGAACAATAAACACATACTCCTCAATA
* * ** * * * * *
1233331 GGATAAATGACATTGATTATTTTCTTTTGCATTGAAATCTTTTCTTTGCCCTATTTTCCTTAAAA
385 GGATAAATGACATAGATGATTTGGTGTCGCA-CGAAAGCTTTTCTTTGCCCTATTATCCTTAAAA
* * **
1233396 TCAAAGTTCATCCCTTAAATAAGACTAGCTTTGATTCTCGTAACAGTCTCCATTCCTTTCAAGAT
449 TCAAAGTTCATCCCTTAAATAAGACAAGCATCAATTCTCGTAACAGTCTCCATTCCTTTCAAGAT
* * **
1233461 TGGGAACCAAAAACGCATACCCTTCATTAAGATACATGACTTTGATCCTTTGATGTTGCAAGAAA
514 TGGGAACCAAAAACACATACCCTTCATTAAGATACATGACATTGATCCTTTGATGTCACAAGAAA
* * * * *
1233526 AGCTTTTCTTTCCACTATTTTTGATAGAATCATAGTTTGTCTCTTAAATAAGA
579 AGCTTTCCTTTCCACCATTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGA
*
1233579 CAAACACGAATACTCACACTAATCCCCATTCTTTTCGGGATTAGGCACCATAAACATAGTCTTCT
1 CAAACACGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCT
* * * * * *
1233644 TAGTAGGATACACGATATTTATGTTTTGGTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGT
66 TAGTAGGATACACAATATTGATGCTTAGGTTTCACAACAAAGGCATTTTTCCCACCAATTTCTGT
* * * * * *
1233709 AAAGTCTATGTTCGTGCCTCAAAAGCGACAAACATGGATTCTACTAATGATATTCATTCAATTTG
131 AAAGTCTAAGCTCGTGCATCAAAAGAGACAAACATGGACTCTACTAATGATACTCATTCAATTTG
** * * * * *
1233774 TGATTAGGCACTTTAAACACATTCTCCTCATTTGGATACACGATATTCATGCTTTGGTTTCACAA
196 TGATTAGGCACAATAAACACATTCTCCTCATTAGGATAAACGATACTCATGATTTGCTTTCACAA
* * * * * * * *
1233839 CAAAGGCTTTCTTCTCAACAATTTTAGGAAGTCTAAGTTCGTGCCTCAAATGAGACAAACTTTGA
261 CAAAGGCTTTCTTCCCAACAATTTTA-GAAATCGAAGTTCATCCCTCAAATAAGACAAACATCGA
* * * * * *
1233904 TTCTAGTAATGATCTTCATTCTTTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGATA
325 TTCTAGTAAAGATCTCCATTCTTTTTGTAAGAAGGAACAATAAACACATACTCCTCAATAGGATA
* ** * * * *
1233969 AATGACATTGATGATTTTTTTTTGCACTGAAATCTTTTCTTTGCCCTATTATCTTTAAAATCAAA
390 AATGACATAGATGATTTGGTGTCGCAC-GAAAGCTTTTCTTTGCCCTATTATCCTTAAAATCAAA
* * * *
1234034 GTTCATCCCTTGAATAAGACAAGCATCAATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGGA
454 GTTCATCCCTTAAATAAGACAAGCATCAATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGGGA
* * * * *
1234099 AGCC-AAAACACATTGCCC-TCGTTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGC
519 A-CCAAAAACACA-TACCCTTCATTAAGATACATGACATTGATCCTTTGATGTCACAAGAAAAGC
*** *
1234162 TTTCCTTTTTGCCATTTTTGATAGAATAAAAGTTTATCTCTTAAATCAGA
582 TTTCCTTTCCACCATTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGA
* *
1234212 TAAACATGAATACT-AGCACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTC
1 CAAACACGAATACTCA-CACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTC
* * **
1234276 TTATTAGGATACATAATATTGATGCTTAGGTTTCGGAACAAAGGC-TTTCTTCCCACCAATTTCT
65 TTAGTAGGATACACAATATTGATGCTTAGGTTTCACAACAAAGGCATTT-TTCCCACCAATTTCT
* * *
1234340 GTAAAGTCTAAGCTCGTGCATCAAATA-AGACAAACTTGGACTCTAGTAATGAT-CT-ATTCATT
129 GTAAAGTCTAAGCTCGTGCATCAAA-AGAGACAAACATGGACTCTACTAATGATACTCATTCAAT
* * * * * **
1234402 TTGTGATTAGGGACAATAAACACATTCTCCTCGTTAGGATAAATGATACTGATGATTTTCTTTTG
193 TTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATAAACGATACTCATGATTTGCTTTCA
** *** **** * *
1234467 CATGGAAATTTTTTCATTGCCCTATTTTTTCTTA-AAATCGAAGTTCATCCCTTAAATAAGAGAA
258 CA-ACAAAGGCTTTC-TT-CCC-AACAATT-TTAGAAATCGAAGTTCATCCCTCAAATAAGACAA
*
1234531 GCATCGATTCTCA-TAACAG-TCTCCATT-TTTTTG-AAGAATGGGAACCAATAAA-A-ATAC-C
318 ACATCGATTCT-AGTAA-AGATCTCCATTCTTTTTGTAAGAA--GGAA-CAATAAACACATACTC
* ** * *
1234589 CTTCAATAGGGTGCATGACATAGATGCTTTGGTGTCGCGA-GAAAAGCTTTTCTTT-CCTCCATT
378 C-TCAATAGGATAAATGACATAGATGATTTGGTGTCGC-ACG-AAAGCTTTTCTTTGCC-CTATT
* *** ** *
1234652 TTTGGTAAAATCAAAGTTTGTCTCTTAAATAAGACAA
439 ATCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAA
1234689 ACTTTATTAC
Statistics
Matches: 935, Mismatches: 149, Indels: 52
0.82 0.13 0.05
Matches are distributed among these distances:
631 59 0.06
632 79 0.08
633 728 0.78
634 55 0.06
635 11 0.01
636 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.35
Consensus pattern (631 bp):
CAAACACGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCT
TAGTAGGATACACAATATTGATGCTTAGGTTTCACAACAAAGGCATTTTTCCCACCAATTTCTGT
AAAGTCTAAGCTCGTGCATCAAAAGAGACAAACATGGACTCTACTAATGATACTCATTCAATTTG
TGATTAGGCACAATAAACACATTCTCCTCATTAGGATAAACGATACTCATGATTTGCTTTCACAA
CAAAGGCTTTCTTCCCAACAATTTTAGAAATCGAAGTTCATCCCTCAAATAAGACAAACATCGAT
TCTAGTAAAGATCTCCATTCTTTTTGTAAGAAGGAACAATAAACACATACTCCTCAATAGGATAA
ATGACATAGATGATTTGGTGTCGCACGAAAGCTTTTCTTTGCCCTATTATCCTTAAAATCAAAGT
TCATCCCTTAAATAAGACAAGCATCAATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGGGAAC
CAAAAACACATACCCTTCATTAAGATACATGACATTGATCCTTTGATGTCACAAGAAAAGCTTTC
CTTTCCACCATTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGA
Found at i:1235637 original size:949 final size:945
Alignment explanation
Indices: 1233775--1235490 Score: 2164
Period size: 949 Copynumber: 1.8 Consensus size: 945
1233765 TTCAATTTGT
** * * * *
1233775 GATTAGGCACTTTAAACACATTCTCCTCATTTGGATACACGATATTCATGCTTTGGTTTCACAAC
1 GATTAGGCACCATAAACACAGTCTCCTCATTAGGATACACGATATTCATGCATTGGTTCCACAAC
* * ** *
1233840 AAAGGCTTTCTTCTCAACAATTTTAGGAAGTCTAAGTTCGTGCCTCAAATGAGACAAACTTTGAT
66 AAAGGCTTTCTTCCCAACAATTTTAGAAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGGAT
* *
1233905 TCTAGTAATGATCTTCATTCTTTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGATAA
131 TCTAGTAATAATCTTCATTCATTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGATAA
* *
1233970 ATGACATTGATGATTTTTTTTTGCACTGAAATCTTTTCTTTGCCCTATTATCTTTAAAATCAAAG
196 ATGACATTGATGATTTTATTTTGCACTGAAATCTTTTCTTTGCCCTATTATCCTTAAAATCAAAG
* * * *
1234035 TTCATCCCTTGAATAAGACAAGCATCAATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGGAA
261 TTCATCCCTTAAATAAGACAAGCATCAATTCTTGTAACAGTCACCACTCTTTTCAAGATTGGGAA
*** *
1234100 GCCAAAACACATTGCCCTCGTTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTT
326 GCCAAAACACAAAACCCTCGTTAGGATACATGACATTGATGCTCTGGTGTCACAAGAAAAGCTTT
* * * ** * *
1234165 CCTTTTTGCCATTTTTGATAGAATAAAAGTTTATCTCTTAAATCAGATAAACATGAATACTAGCA
391 -CTCTTTCCCATATTTGATAGAATAAAAGTTTATCTCACAAATAAGAAAAACATGAATACTAGCA
*
1234230 CTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATTAGGATACATAATAT
455 CTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATTAGGATACACAATAT
*
1234295 TGATGCTTAGGTTTCGGAACAAAGGCTTTCTTCCCACCAATTTCTGTAAAGTCTAAGCTCGTGCA
520 TGATGCTTAGGTTTCGCAACAAAGGCTTTCTTCCCACCAATTTCTGTAAAGTCTAAGCTCGTGCA
* * * *
1234360 TCAAATAAGACAAACTTGGACTCTAGTAATGATCTATTCATTTTGTGATTAGGGACAATAAACAC
585 TCAAATAAGACAAACATGGACTCTACTAATGATCTATTCAATTTGTGATTAGGCACAATAAACAC
* ** ** ** * *
1234425 ATTCTCCTCGTTAGGATAAATGATACTGATGATTTTCTTTTGCATGGAAATTTTTTCATTGCCCT
650 ATTCTCCTCGTTAGGATAAACGATACTGATGATTCGCTTTTGCATACAAAGCTTTT-ATTCCCCC
* * ** * *
1234490 ATTTTTTCTTAAAATCGAAGTTCATCCCTTAAATAAGAGAAGCATCGATTCTCATAACAGTCTCC
714 AATTTTTCATAAAATCGAAGCCCATCCCTCAAAT-AGAGAAACATCGATTCTCATAACAGTCTCC
* ** *
1234555 ATTTTTTTGAAGAATGGGAACCAATAAAAATACCCTTCAATAGGGTGCATGACATAGATGCTTTG
778 ATTTTTTTGAAGAATGGGAACCAATAAAAATACCCTTCAATAGGATAAATGACATAGATGATTTG
** ** *
1234620 GTGTCGCGAGAAAAGCTTTTCTTTCCTCCATTTTTGGTAAAATCAAAGTTTGTCTCTTAAATAAG
843 GTGTCGCGAGAAAAGCTTTTCTTTCCTCCATTTTCCGTAAAATCAAAGTTCATCCCTTAAATAAG
1234685 ACAAACTTTATTACTCATGCTAACCCCATTCTTTTCAA
908 ACAAACTTTATTACTCATGCTAACCCCATTCTTTTCAA
* * * *
1234723 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCATTGGTTCCGCAAC
1 GATTAGGCACCATAAACACAGTCTCCTCATTAGGATACACGATATTCATGCATTGGTTCCACAAC
*
1234788 AAAGGCTTTCTTCCC-ACAAATTTTTGAAAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGG
66 AAAGGCTTTCTTCCCAAC-AATTTTAG-AAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGG
* * ** *
1234852 ATTCTATTAATAATCTTCATTCATTTTGTGATTAGGGA-TAATAAACACATTCTCCTCATTAGGA
129 ATTCTAGTAATAATCTTCATTCATTTTGTAAGAAGGCACT-ATAAACACATTCTCCTCATTAGGA
* *
1234916 TAAATGATATTGATGATTTTATTTTGCA-TGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATC
193 TAAATGACATTGATGATTTTATTTTGCACT-GAAATCTTTTCTTTGCCCTATTATCCTTAAAATC
* ** *
1234980 AAAGTTTATCCCTTAAATAAGACAAGCATCGGTTCTTGTAAGAGTCACCACTCTTTTCAAGATTG
257 AAAGTTCATCCCTTAAATAAGACAAGCATCAATTCTTGTAACAGTCACCACTCTTTTCAAGATTG
* ****
1235045 GGAA-CCAAAA-ACAGAAACCCTTCTTTAGGATACATGACATTGATGCTCTGGTGTCGGGCGAAA
322 GGAAGCCAAAACACA-AAACCC-TCGTTAGGATACATGACATTGATGCTCTGGTGTCACAAGAAA
* *
1235108 AGCTTT-TCTTTCCACAGTATTTGATAGAATCAAAGTTTGTCTCACAAATAAGACAAAACATGAA
385 AGCTTTCTCTTTCC-CA-TATTTGATAGAATAAAAGTTTATCTCACAAATAAGA-AAAACATGAA
*
1235172 TACTCA-CACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAATATAGTCTT-TTCATTAGGA
447 TACT-AGCACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTT-ATTAGGA
* * * * * *
1235235 TACACGATATTGATGCTTTGGTTTTGCAAGAAAGGCATTT-TTCCCACCAATTTTTGTAAAGTGT
510 TACACAATATTGATGCTTAGGTTTCGCAACAAAGGC-TTTCTTCCCACCAATTTCTGTAAAGTCT
* * * ** *
1235299 ATGTTCGTGTC-TTAAATGTGACAAACATGGATTCTACTAATGATCTTCATTCAATTTGTGATTA
574 AAGCTCGTG-CATCAAATAAGACAAACATGGACTCTACTAATGATC-T-ATTCAATTTGTGATTA
* * * * * * *
1235363 GGCACCATAAACATATTCTCCTCTTTAGGATACACGATATTGATGCTTCGGTTTTGCA-ACAAAG
636 GGCACAATAAACACATTCTCCTCGTTAGGATAAACGATACTGATGATTCGCTTTTGCATACAAA-
** * * * *
1235427 GCTTTT-TTCCCACCAATTTTT-ATAAGGTCTAAGCCCATGCCTCAAAT-GAGCAAACTTGGATT
700 GCTTTTATTCCC-CCAATTTTTCATAAAATCGAAGCCCATCCCTCAAATAGAG-AAACATCGATT
1235489 CT
763 CT
1235491 AGTAATGATC
Statistics
Matches: 650, Mismatches: 100, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
947 10 0.02
948 92 0.14
949 291 0.45
950 175 0.27
951 16 0.02
952 66 0.10
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (945 bp):
GATTAGGCACCATAAACACAGTCTCCTCATTAGGATACACGATATTCATGCATTGGTTCCACAAC
AAAGGCTTTCTTCCCAACAATTTTAGAAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGGAT
TCTAGTAATAATCTTCATTCATTTTGTAAGAAGGCACTATAAACACATTCTCCTCATTAGGATAA
ATGACATTGATGATTTTATTTTGCACTGAAATCTTTTCTTTGCCCTATTATCCTTAAAATCAAAG
TTCATCCCTTAAATAAGACAAGCATCAATTCTTGTAACAGTCACCACTCTTTTCAAGATTGGGAA
GCCAAAACACAAAACCCTCGTTAGGATACATGACATTGATGCTCTGGTGTCACAAGAAAAGCTTT
CTCTTTCCCATATTTGATAGAATAAAAGTTTATCTCACAAATAAGAAAAACATGAATACTAGCAC
TAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATTAGGATACACAATATT
GATGCTTAGGTTTCGCAACAAAGGCTTTCTTCCCACCAATTTCTGTAAAGTCTAAGCTCGTGCAT
CAAATAAGACAAACATGGACTCTACTAATGATCTATTCAATTTGTGATTAGGCACAATAAACACA
TTCTCCTCGTTAGGATAAACGATACTGATGATTCGCTTTTGCATACAAAGCTTTTATTCCCCCAA
TTTTTCATAAAATCGAAGCCCATCCCTCAAATAGAGAAACATCGATTCTCATAACAGTCTCCATT
TTTTTGAAGAATGGGAACCAATAAAAATACCCTTCAATAGGATAAATGACATAGATGATTTGGTG
TCGCGAGAAAAGCTTTTCTTTCCTCCATTTTCCGTAAAATCAAAGTTCATCCCTTAAATAAGACA
AACTTTATTACTCATGCTAACCCCATTCTTTTCAA
Found at i:1236515 original size:475 final size:472
Alignment explanation
Indices: 1235358--1236989 Score: 2136
Period size: 474 Copynumber: 3.4 Consensus size: 472
1235348 TTCAATTTGT
* * * * *
1235358 GATTAGGCACCATAAACATATTCTCCTCTTTAGGATACACGATATTGATGCTTCGGTTTTGCAAC
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTAGGTTTCGCAAC
* * * *
1235423 AAAGGCTTTTTTCCCACCAATTTTT-ATAAGGTCTAAGCCCATGCCTCAAATGAG-CAAACTTGG
66 AAAGGCTTTCTTCCCACCAATTTTTGA-AAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGG
* **
1235486 ATTCTAGTAATGATCTTCTTTCATTTTGTGATTAGGGACAATAAACATGTTCTCCTCATTAGGAT
130 ATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCATTAGGAT
* *
1235551 AAATGATATTGATGATTTTTATTTGCATGGATATCTTTTCTTTCCCTATTTTCCTTAAAATCAAA
195 AAATGATATTGATGATTTTT-TTTGCATGGAAATCTTTTCTTGCCCTATTTTCCTTAAAATCAAA
* *
1235616 GTTCATCCCTTGAATAAGACAAGCATCAATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGGA
259 GTTCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGGA
* * * *
1235681 AGCCAAAACACATTGCCC-TCATTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCT
324 A-CCAAAA-ACAATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAGCT
* * * * * *
1235745 TTCCTTT-TTGCCATTTTTGATAGAATAAAAGTTTATCTCTTAAATCAGATAAACATGAATACT-
387 TTTCTTTCCT-CCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTC
1235808 AGCACTAATCCCCATTCTTTTCAG
451 AG--CTAATCCCCATTCTTTTCAG
* ** *
1235832 GATTAGGCACCATAAACATAGTCTTCTTATTAGGATACATAATATTGATGCTTAGGTTTCGGAAC
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTAGGTTTCGCAAC
* * * *
1235897 AAAGGCTTTCTTCCCACCAATTTCTGTAAAGTCTAAGCTCGTGCATCAAATAAGACAAACTTGGA
66 AAAGGCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGGA
* *
1235962 CTCTAGTAATGATC-T-ATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCGTTAGGATA
131 TTCTAGTAATGATCTTCATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCATTAGGATA
* * * *
1236025 AATGATACTGATGATTTTCTTTTGCATGGAAATTTTTTCATTGCCCTATTTTTTCTTAAAATCGA
196 AATGATATTGATGATTTT-TTTTGCATGGAAATCTTTTC-TTGCCCTA-TTTTCCTTAAAATCAA
* ** * *
1236090 AGTTCATCCCTTAAATAAGAGAAGCATCGATTCTCATAACAGTCTCCATTTTTTTGAAGAATGGG
258 AGTTCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGG
* * * *
1236155 AACCAATAAA-AATACCCTTCAATAGGGTGCATGACATAGATGCTTTGGTGTCGCGAGAAAAGCT
323 AACCAA-AAACAATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAGCT
* * * * *
1236219 TTTCTTTCCTCCATTTTTGGTAAAATCAAAGTTTGTCTCTTAAATAAGACAAACTTTATTACTCA
387 TTTCTTTCCTCCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCA
*
1236284 TGCTAA-CCCCATTCTTTTCAA
452 -GCTAATCCCCATTCTTTTCAG
*
1236305 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCATT-GGTTCCGCAA
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGC-TTAGGTTTCGCAA
* *
1236369 CAAAGGCTTTCTTCCCACAAATTTTTGAAAAGTCTAAGCACGTGCCTCAAATGAGACAAACTTGG
65 CAAAGGCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGG
* * *
1236434 ATTCTATTAATAATCTTCATTCATTTTGTGATTAGGGATAATAAACACATTCTCCTCATTAGGAT
130 ATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCATTAGGAT
1236499 AAATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAA
195 AAATGATATTGATGATTTT-TTTTGCATGGAAATCTTTTC-TTGCCCTATTTTCCTTAAAATCAA
* * * * *
1236564 AGTTTATCCCTTAAATAAGACAAGCATCGATTCTTGTAAGAGTCACCACTCTTTTCAAGATTGGG
258 AGTTCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGG
* * * * *
1236629 AACCAAAAACAGAAACCCTTCTTTAGGATACATGACATTGATGCTCTGGTGTCGGGCGAAAAGCT
323 AACCAAAAACA-ATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAGCT
* * *
1236694 TTTCTTTCC-ACAGTATTTGATAGAATCAAAGTTTGTCTCATAAATAAGACAAAACATGAATACT
387 TTTCTTTCCTCCA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAC-AAACATGAATACT
*
1236758 CACACTAATCCCCATTCTTTTCAG
450 CA-GCTAATCCCCATTCTTTTCAG
* * * * *
1236782 GATTAGGCACCATAAATATAGTCTTTTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAG
1 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTAGGTTTCGCAAC
* * * * * * * *
1236847 AAAGGCATTT-TTCCCACCAATTTTTGTAAAGTGTATGTTCGTGTCTTAAATGTGACAAACATGG
66 AAAGGC-TTTCTTCCCACCAATTTTTGAAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGG
* * * * * *
1236911 ATTCTACTAATGATCTTCATTCAATTTGTGATTAGGCACCATAAACATATTCTCCTCTTTAGGAT
130 ATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCATTAGGAT
* *
1236976 ACACGATATTGATG
195 AAATGATATTGATG
1236990 CTTCGGTTTT
Statistics
Matches: 1006, Mismatches: 132, Indels: 37
0.86 0.11 0.03
Matches are distributed among these distances:
473 227 0.23
474 290 0.29
475 277 0.28
476 19 0.02
477 190 0.19
478 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (472 bp):
GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTAGGTTTCGCAAC
AAAGGCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGCTCGTGCCTCAAATGAGACAAACTTGGA
TTCTAGTAATGATCTTCATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCATTAGGATA
AATGATATTGATGATTTTTTTTGCATGGAAATCTTTTCTTGCCCTATTTTCCTTAAAATCAAAGT
TCATCCCTTAAATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGGAAC
CAAAAACAATACCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCGAGAAAAGCTTTTC
TTTCCTCCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCAGCTA
ATCCCCATTCTTTTCAG
Found at i:1237430 original size:950 final size:937
Alignment explanation
Indices: 1235515--1239370 Score: 2285
Period size: 950 Copynumber: 4.0 Consensus size: 937
1235505 TTCATTTTGT
* *
1235515 GATTAGGGACAATAAACATGTTCTCCTCATTAGGATAAATGATATTGATGATTTTTATTTGCATG
1 GATTAGGCACAATAAACATATTCTCCTCATTAGGATAAATGATATTGATGATTTTT-TTTGCATG
* * *
1235580 GATATCTTTTCTTT-CCCTATTTTCCTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCA
65 GAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCG
* * * *
1235644 ATTCTTGTAACAGTCTCCATTCTTTTGAAGATTGGGAAGCCAAAACACATTGCCC-TCATTAGGA
130 ATTCTTGTAAGAGTCTCCATTCTTTTCAAGATTGGGAA-CCAAAA-ACAATACCCTTCATTAGGA
* * * *
1235708 TACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTCCTTTTTGCCATTTTTGATAGAATAA
193 TACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTT--TTTTTCCCATATTTGATAGAATCA
* *
1235773 AAGTTTATCTCTTAAATCAGATAAACATGAATACT-AGCACTAATCCCCATTCTTTTCAGGATTA
256 AAGTTTATCTCTTAAATAAGACAAACATGAATACTCA-CACTAATCCCCATTCTTTTCAGGATTA
* * * * *
1235837 GGCACCATAAACATAGTCTTCTT-ATTAGGATACATAATATTGATGCTTAGGTTTCGGAACAAAG
320 GGCACCATAAACATAGTCTT-TTCATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAG
* * * * * *
1235901 GC-TTTCTTCCCACCAATTTCTGTAAAGTCTAAGCTCGTG-CATCAAATAAGACAAACTTGGACT
384 GCATTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGTC-TTAAATATGACAAACATGGATT
* * * * *
1235964 CTAGTAATGATCT-ATTCATTTTGTGATTAGGGACAATAAACACATTCTCCTCGTTAGGATAAAT
448 CTACTAATGATCTCATTCAATTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATACAT
* * ** ** ** * * * * * *
1236028 GATACTGATGATTTTCTTTTGCATGGAAA-TTTTTTCATTGCC-CTATTTTTTCTTAAAATCGAA
513 GATATTGATGCTTTGGTTTTGCA-ACAAAGGCTTTT--TTCCCACCAATTTTT-ATAAAGTCTAA
* * * * * * * *
1236091 GTTCATCCCTTAAATAAGAG-AAGCATCGATTCTCA-TAA-CAGTCTCCATTT-TTTTGAAGAAT
574 GTTCATGCCTCAAAT--GAGCAAACATGGATTCT-AGTAATGA-TCTTC-TTTCTTTTG-TGATT
* * * ** * * * * * * *
1236152 -GGGAACCAATAAA-AATAC-CCTTCAATAGGGTGCATGACATAGATGCTTTGGTGTCGCGA-GA
633 AGGG-A-CAATAAACAATTCTCC-TCATTAGGATAAATGATATTGATGATTT-TTTTTGC-ATGG
* * *** ** * **
1236213 AAAGCTTTTCTTTCCTCCATTTTTGGTAAAATCAAAGTTTGT-CTCTTAAATAAGACAAAC-TTT
693 AAATCTTTTCTTTCC-CTATTTTCCTTAAAATCAAAGTTCATCCT-TTAAATAAGACAAGCATCG
* * * * *
1236276 ATTACTCATGCTAAC--C-CCATTCTTTTCAAGATTAGGCA-CCATAAACATAGTCTTCTCATTA
756 ATT-CTC--G-TAACATCTCCATTCTTTTCAAGATTGGGAAGCCA-AAACACATTCCT-TCATTA
* * * *
1236337 GGATACACGATATTGATGCATTGGT-TCCGCAACAAAGGC-TTTCTTCCCACAAATTTTTGA-A-
815 GGATACACGACATTGATGCTTTGGTGT-CGCAA-AAAAGCTTTTCTTTCCAC--ATTTTTGATAG
* *** * * * * ** * * *
1236398 AAGTCTAAGCACGTGC-CTCAAATGAGACAAACTTGGATTCT-ATTAATAATCTTCATTCATTTT
876 AA-TCAAAGTTTGT-CTCTTAAATAAGACAAACATGAAAACTCA-CACTAATC-CCATTC-TTTT
1236461 -G
936 CG
* * *
1236462 TGATTAGGGATAATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTATTTTGCAT
1 -GATTAGGCACAATAAACATATTCTCCTCATTAGGATAAATGATATTGATGATTTT-TTTTGCAT
*
1236527 GGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCCTTAAATAAGACAAGCATC
64 GGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATC
* * * *
1236592 GATTCTTGTAAGAGTCACCACTCTTTTCAAGATTGGGAACCAAAAACAGAAACCCTTCTTTAGGA
129 GATTCTTGTAAGAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACA-ATACCCTTCATTAGGA
* *** *
1236657 TACATGACATTGATGCTCTGGTGTCGGGCGAAAAGCTTTTCTTTCCACAGTATTTGATAGAATCA
193 TACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTTCC-CA-TATTTGATAGAATCA
* *
1236722 AAGTTTGTCTCATAAATAAGACAAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTA
256 AAGTTTATCTCTTAAATAAGAC-AAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTA
* *
1236787 GGCACCATAAATATAGTCTTTTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGG
320 GGCACCATAAACATAGTCTTTTCATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGG
* * *
1236852 CATTT-TTCCCACCAATTTTTGTAAAGTGTATGTTCGTGTCTTAAATGTGACAAACATGGATTCT
385 CATTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGTCTTAAATATGACAAACATGGATTCT
* * * *
1236916 ACTAATGATCTTCATTCAATTTGTGATTAGGCACCATAAACATATTCTCCTCTTTAGGATACACG
450 ACTAATGATC-TCATTCAATTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATACATG
* * **
1236981 ATATTGATGCTTCGGTTTTGCAACAAAGGCTTTTTTCCCACCAATTTTTATAAGGTCTAAGCCCA
514 ATATTGATGCTTTGGTTTTGCAACAAAGGCTTTTTTCCCACCAATTTTTATAAAGTCTAAGTTCA
*
1237046 TGCCTCAAATGAGCAAACTTGGATTCTAGTAATGATCTTCTTTCATTTTGTGATTAGGGACAATA
579 TGCCTCAAATGAGCAAACATGGATTCTAGTAATGATCTTCTTTC-TTTTGTGATTAGGGACAATA
* *
1237111 AACATGTTCTCCTCATTAGGATAAATGATATTGATGATTTTTATTTGCATGGATATCTTTTCTTT
643 AACA-ATTCTCCTCATTAGGATAAATGATATTGATGATTTTT-TTTGCATGGAAATCTTTTCTTT
*
1237176 CCCTGTTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACAAGCATCGATTCTCGTAACAGTC
706 CCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACAAGCATCGATTCTCGTAACA-TC
* *
1237241 TCCATTCTTTTCAAGATTGGGAAGCCAAAACACATTCCCTTCATTA-GATATATGACATTGATGC
770 TCCATTCTTTTCAAGATTGGGAAGCCAAAACACATT-CCTTCATTAGGATACACGACATTGATGC
*
1237305 TTTGGTGTCGTAGAAAAAGCTTTTCTTTCCACTATTTTTGATAGAATCAAAGTTTGTCTCTTAAA
834 TTTGGTGTCGCA-AAAAAGCTTTTCTTTCCAC-ATTTTTGATAGAATCAAAGTTTGTCTCTTAAA
1237370 TAAGACAAACATGAAAACTCACACTAATCCCAATTCTTTTCAG
897 TAAGACAAACATGAAAACTCACACTAATCCC-ATTCTTTTC-G
* * * * ** ** ** **
1237413 GATTAGGCACCATAAACATAGTATTCTCATTAGG-TACGTGATATTGATTCTTTGGTTT-CACAA
1 GATTAGGCACAATAAACATATTCTCCTCATTAGGATAAATGATATTGATGATTTTTTTTGCA-TG
* * * * ** * * * *
1237476 CAAAGGC-TTTC-TTGCCGCCAATTTT--TGTAAAGTGTAAGTTCGT-GCTTCAAATGAGACAAA
65 GAAA-TCTTTTCTTTG-C-CCTATTTTCCT-TAAAATCAAAGTTCATCCCTT-AAATAAGACAAG
* * * * * * * * * *
1237536 CTTGGATTCTAGTAACGA-TCTTCATTTATTTTC-TGATTAGGCACAAAAAACACATTCTCCTT-
125 CATCGATTCTTGTAA-GAGTCTCCA-TTCTTTTCAAGATTGGGAACCAAAAACA-ATAC-CCTTC
* * * * ** * * * * * **
1237598 ATTATGATAAATGATATTGATGATTTTTTTTTGCATGGAAATCTTTTTTTTACCC-TATTTTCCT
186 ATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTT-CCCATA-TTT-GA
* * * * * *
1237662 TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCG-ATTCTCGTA-AC-AGTCGCCC-TTCT
248 TAGAATCAAAGTTTATCTCTTAAATAAGACAAACAT-GAATACTC--ACACTAATC-CCCATTCT
* * * * * * * * * *
1237723 TTTCAAGATTGGGAAGCCA-AAACACATTAC-CTTCATTAGGATAAATGACATTGTTGCTTTTGT
309 TTTCAGGATTAGGCA-CCATAAACATAGT-CTTTTCATTAGGATACATGATATTGATGCTTTGGT
* * * *** * * * *
1237786 ATTGCAAGAAAAGCATTTCTTCCCTCTGCTTTTGGTAGAA-TCCAAGTTTGTCTCTTAAATATGA
372 TTTGCAAGAAAGGCATTTCTTCCCACCAATTTTTGTA-AAGTCTAAGTTCGTGTCTTAAATATGA
* * * *** * * **
1237850 TAAACATGAATTCCCAC-ACCAATCCCCATTC-CTTTCAG-GATTAGGCATTATAAACACATTCT
436 CAAACATGGATT-CTACTAATGAT-CTCATTCAATTT--GTGATTAGGCACAATAAACACATTCT
* * * *
1237912 CCTCACTAGGATACATGATATTGATGCTTTGGGTTCGCAACAAAGGCTTTATTCCCACCAATTTT
497 CCTCATTAGGATACATGATATTGATGCTTTGGTTTTGCAACAAAGGCTTTTTTCCCACCAATTTT
* * *** * * *
1237977 TGTAAAGTGTAAGTTTGCGCCTCATATGAGACAAACATGAATTCTAGTAATGATCTTCATTCTTT
562 TATAAAGTCTAAGTTCATGCCTCAAATGAG-CAAACATGGATTCTAGTAATGATCTTCTTTC-TT
* * * * *
1238042 TTGTGATAAGGCACTATAAACACATTCTCCTCATTAGGATAAACGATATTGATGATTTTCTTTTA
625 TTGTGATTAGGGACAATAAACA-ATTCTCCTCATTAGGATAAATGATATTGATGATTTT-TTTTG
* * * * * * *
1238107 CATGGAAATCTTTTCTCTGCCATATTATCCTTCAAATCAAAGTTCACCCCTTGAATAAGACAAGC
688 CATGGAAATCTTTTCT-TTCCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACAAGC
* ** * * * *
1238172 ATCGAGTCTCACAACAATCTCCATTCCTTTCAAGATTGTGAAGCCAAAAAACATTGTCTTCATTA
752 ATCGATTCTCGTAAC-ATCTCCATTCTTTTCAAGATTGGGAAGCCAAAACACATT-CCTTCATTA
* * * * ** *
1238237 TGATACACGACATTGAGGCTTTGGTGTCACAAAAAAAGCTTTTTTTTCGTCGTTTTTGATAGAAT
815 GGATACACGACATTGATGCTTTGGTGTCGC-AAAAAAGCTTTTCTTTCCACATTTTTGATAGAAT
* *
1238302 CAAAGTTTGTCTCATAAATAAGATAAACAT-AAATACTCACACTAATCCCTATTCTTTTCTG
879 CAAAGTTTGTCTCTTAAATAAGACAAACATGAAA-ACTCACACTAATCCC-ATTCTTTTC-G
* * * *
1238363 GATAAGGCGCCATAAACATACTCTTCCCATAAACATAGTCTTCTTATTAGGATACACT-ATATTG
1 GATTAGGCACAATAAACATA---TT--C-T---C-----C-TC--ATTAGGATA-AATGATATTG
* * * * * ** * *
1238427 ATGCTTTGGTTTCGCA-GCAAAGGC-TTTCTTCT-CACGAATTTT--TGAAAAGTCTAAGTTCAT
48 ATGATTT-TTTTTGCATGGAAA-TCTTTTCTT-TGC-CCTATTTTCCTTAAAA-TCAAAGTTCAT
* * * * * * * ** ** * *
1238487 -GCTTCAAATGAGACAAACTTAGATTCTAGTAATGA-TCTTCATTCATTTT-GTGATAAGGCACT
108 CCCTT-AAATAAGACAAGCATCGATTCTTGTAA-GAGTCTCCATTC-TTTTCAAGATTGGGAACC
* * * * * * * * * *
1238549 ATAAACATATTCTCC-TCATTAGGATAAATGACATTAATGGCTTT-TTTTTGCATGGAAATCTTT
170 AAAAACA-ATAC-CCTTCATTAGGATACATGACATTGAT-GCTTTGGTGTCGCAAGAAAAGCTTT
* ** * * * * *
1238612 TCTTTGCCC-TATTATCCTTCA-AATCAAAGTTCACCAT-TTGAATAAGACAAGCATTG-ATTCT
232 T-TTTTCCCATATT-T-GAT-AGAATCAAAGTTTATC-TCTTAAATAAGACAAACA-TGAATACT
* * * * * * * * * *
1238673 CATAAC-AGTCTCCATTCTTTTCAAGATTGGGAAGACA-AAACA-CGTTGCCTTT-GTTAGGATA
291 CA-CACTAATCCCCATTCTTTTCAGGATTAGGCA-CCATAAACATAG-T-CTTTTCATTAGGATA
* ** * * * * * * ** ** ** * * * *
1238734 CTTGGCATTGATGTTTTGGTGTCGTAGGAAAAGTTTTTCTTTTCGTC-GTTTTTGATAGATTCAA
352 CATGATATTGATGCTTTGGTTTTGCAAGAAAGGCATTTCTTCCCACCAATTTTTG-TAAAGTCTA
* * * * * * * * * * *
1238798 AGTTTGTCTTTTAAATGATGATAAACATGAATACTCAC-ACTAATCCCCATTC-TTTTTTGGATT
416 AGTTCGTGTCTTAAAT-ATGACAAACATGGATTCT-ACTAATGAT-CTCATTCAATTTGT-GATT
** * * * ** * * *
1238861 AGG-ACCCGTAAACATAGTCTTCTCATTAACATACATGATATTGATGCCTTGGTTTCGCAATAAA
477 AGGCA-CAATAAACACATTCTCCTCATTAGGATACATGATATTGATGCTTTGGTTTTGCAACAAA
** * ** * * *
1238925 GGCTTTCATCTCATGAATTTTTGA-AAACTCTAAGTTCATGCTTCAAATGAGACAAACTTGGATT
541 GGCTTTTTTCCCACCAATTTTT-ATAAAGTCTAAGTTCATGCCTCAAATGAG-CAAACATGGATT
* ** **
1238989 CTAGTAATGATCTTCATTCATTTTGTGAACAGACACAATAAACACATTCTCCTCATTAGGATAAA
604 CTAGTAATGATCTTCTTTC-TTTTGTGATTAGGGACAATAAACA-ATTCTCCTCATTAGGATAAA
* * *
1239054 TGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCTTATTTTTCCTTAAAATTAAAG
667 TGATATTGATGATTTT-TTTTGCATGGAAATCTTTTCTTT-CCCTA-TTTTCCTTAAAATCAAAG
* * * *
1239119 TTCCTCCCTTAAATACA-ACAAACATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGA
729 TTCATCCTTTAAATA-AGACAAGCATCGATTCTCGTAACA-TCTCCATTCTTTTCAAGATTGGGA
** * * * *
1239183 A-CCAAAAACACAAACCCTTCATTAGGATCCATGACTTTAATGCTTTGGTG-CTGCAAGAAAAGC
792 AGCC-AAAACAC-ATTCCTTCATTAGGATACACGACATTGATGCTTTGGTGTC-GCAA-AAAAGC
* * * * * * ** *
1239246 TTTTCATTCCACCGTTTTTGATAGAATTAAAGTTTATCTCTTAAATAAAATATGCATGAATACTC
853 TTTTCTTTCCA-CATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAAAACTC
*
1239311 ACAGTAATCCTCATTCTTTTCAG
917 ACACTAATCC-CATTCTTTTC-G
* * * * *
1239334 GATTAGGCACCATAGACACATTCACTTCATTAGGATA
1 GATTAGGCACAATAAACATATTCTCCTCATTAGGATA
1239371 CACGTTATTG
Statistics
Matches: 2343, Mismatches: 433, Indels: 258
0.77 0.14 0.09
Matches are distributed among these distances:
946 6 0.00
947 102 0.04
948 383 0.16
949 409 0.17
950 519 0.22
951 68 0.03
952 67 0.03
953 1 0.00
954 9 0.00
956 3 0.00
962 1 0.00
964 1 0.00
965 2 0.00
966 2 0.00
967 22 0.01
968 290 0.12
969 256 0.11
970 119 0.05
971 80 0.03
972 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (937 bp):
GATTAGGCACAATAAACATATTCTCCTCATTAGGATAAATGATATTGATGATTTTTTTTGCATGG
AAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGA
TTCTTGTAAGAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAATACCCTTCATTAGGATAC
ATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTTCCCATATTTGATAGAATCAAAGTT
TATCTCTTAAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACC
ATAAACATAGTCTTTTCATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCATTTC
TTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGTCTTAAATATGACAAACATGGATTCTACTAAT
GATCTCATTCAATTTGTGATTAGGCACAATAAACACATTCTCCTCATTAGGATACATGATATTGA
TGCTTTGGTTTTGCAACAAAGGCTTTTTTCCCACCAATTTTTATAAAGTCTAAGTTCATGCCTCA
AATGAGCAAACATGGATTCTAGTAATGATCTTCTTTCTTTTGTGATTAGGGACAATAAACAATTC
TCCTCATTAGGATAAATGATATTGATGATTTTTTTTGCATGGAAATCTTTTCTTTCCCTATTTTC
CTTAAAATCAAAGTTCATCCTTTAAATAAGACAAGCATCGATTCTCGTAACATCTCCATTCTTTT
CAAGATTGGGAAGCCAAAACACATTCCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGCA
AAAAAGCTTTTCTTTCCACATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
AAACTCACACTAATCCCATTCTTTTCG
Found at i:1238095 original size:476 final size:475
Alignment explanation
Indices: 1236940--1239872 Score: 3373
Period size: 476 Copynumber: 6.1 Consensus size: 475
1236930 TTCAATTTGT
* * * * *
1236940 GATTAGGCACCATAAACATATTCTCCTCTTTAGGATACACGATATTGATGCTTCGGTTTTGCAAC
1 GATTAGGCACCATAAACATATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCGCAAC
* * * **
1237005 AAAGGCTTTTTTCCCACCAATTTTTATAAGGTCTAAGCCCATGCCTCAAATGAG-CAAACTTGGA
66 AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACTTGGA
* * * **
1237069 TTCTAGTAATGATCTTCTTTCATTTTGTGATTAGGGACAATAAACATGTTCTCCTCATTAGGATA
131 TTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACAATAAACACATTCTCCTCATTAGGATA
* *
1237134 AATGATATTGATGATTTT-TATTTGCATGGATATCTTTTCTTT-CCCTGTTTTCCTTAAAATCAA
196 AATGATATTGATGATTTTCT-TTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAA
* *
1237197 AGTTCATCCTTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGG
260 AGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGG
* * *
1237262 AAGCCAAAACACATTCCCTTCATTA-GATATATGACATTGATGCTTTGGTGTCG-TAGAAAAAGC
325 AAGCCAAAACACATTACCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG-AAAAGC
* * * *
1237325 TTTTCTTTCCACTATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAAAACTC
389 TTTTCTTTCCTC-GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTC
*
1237390 ACACTAATCCCAATTCTTTTCAG
453 ACACTAATCCCCATTCTTTTCAG
* * * * *
1237413 GATTAGGCACCATAAACATAGTATTCTCATTAGG-TACGTGATATTGATTCTTTGGTTTCACAAC
1 GATTAGGCACCATAAACATATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCGCAAC
* * * * *
1237477 AAAGGCTTTCTTGCCGCCAATTTTTGTAAAGTGTAAGTTCGTGCTTCAAATGAGACAAACTTGGA
66 AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACTTGGA
* * * * * * *
1237542 TTCTAGTAACGATCTTCATTTATTTTCTGATTAGGCACAAAAAACACATTCTCCTTATTATGATA
131 TTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACAATAAACACATTCTCCTCATTAGGATA
* * *
1237607 AATGATATTGATGATTTTTTTTTGCATGGAAATCTTTTTTTTACCCTATTTTCCTTAAAATCAAA
196 AATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAA
* * *
1237672 GTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCGCCCTTCTTTTCAAGATTGGGA
261 GTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGA
* * * * * *
1237737 AGCCAAAACACATTACCTTCATTAGGATAAATGACATTGTTGCTTTTGTATTGCAAGAAAAGCAT
326 AGCCAAAACACATTACCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTT
* * * * * * *
1237802 TTCTTCCCTCTGCTTTTGGTAGAATCCAAGTTTGTCTCTTAAATATGATAAACATGAATTCCCAC
391 TTCTTTCCTC-GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCAC
* *
1237867 ACCAATCCCCATTCCTTTCAG
455 ACTAATCCCCATTCTTTTCAG
** * * * *
1237888 GATTAGGCATTATAAACACATTCTCCTCACTAGGATACATGATATTGATGCTTTGGGTTCGCAAC
1 GATTAGGCACCATAAACATATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCGCAAC
* * *** * * *
1237953 AAAGGCTTTATTCCCACCAATTTTTGTAAAGTGTAAGTTTGCGCCTCATATGAGACAAACATGAA
66 AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACTTGGA
* *
1238018 TTCTAGTAATGATCTTCATTCTTTTTGTGATAAGGCACTATAAACACATTCTCCTCATTAGGATA
131 TTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACAATAAACACATTCTCCTCATTAGGATA
* * * * * *
1238083 AACGATATTGATGATTTTCTTTTACATGGAAATCTTTTCTCTGCCATATTATCCTTCAAATCAAA
196 AATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAA
* * * * * * *
1238148 GTTCACCCCTTGAATAAGACAAGCATCGAGTCTCACAACAATCTCCATTCCTTTCAAGATTGTGA
261 GTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGA
* ** * * * * *
1238213 AGCCAAAAAACATTGTCTTCATTATGATACACGACATTGAGGCTTTGGTGTCACAAAAAAAGCTT
326 AGCCAAAACACATTACCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTT
* * * *
1238278 TTTTTTCGTCGTTTTTGATAGAATCAAAGTTTGTCTCATAAATAAGATAAACATAAATACTCACA
391 TTCTTTCCTCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACA
* *
1238343 CTAATCCCTATTCTTTTCTG
456 CTAATCCCCATTCTTTTCAG
* *
1238363 GATAAGGCGCCATAAACATACTCTTCCCATAAACATAGTCTTCTTATTAGGATACACT-ATATTG
1 GATTAGGCACCATAAACATA----T----T---C-T--TC-TC--ATTAGGATACA-TGATATTG
* * * * *
1238427 ATGCTTTGGTTTCGCAGCAAAGGCTTTCTTCTCACGAATTTTTGAAAAGTCTAAGTTCATGCTTC
48 ATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTC
* * *
1238492 AAATGAGACAAACTTAGATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACAT
113 AAATGAGACAAACTTGGATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACAATAAACAC
* * *
1238557 ATTCTCCTCATTAGGATAAATGACATTAATGGCTTTT-TTTTGCATGGAAATCTTTTCTTTGCCC
178 ATTCTCCTCATTAGGATAAATGATATTGAT-GATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * * *
1238621 TATTATCCTTCAAATCAAAGTTCA-CCATTTGAATAAGACAAGCATTGATTCTCATAACAGTCTC
242 TATTTTCCTTAAAATCAAAGTTCATCC-CTTAAATAAGACAAGCATCGATTCTCATAACAGTCTC
* * * ** * * *
1238685 CATTCTTTTCAAGATTGGGAAGACAAAACACGTTGCCTTTGTTAGGATACTTGGCATTGATGTTT
306 CATTCTTTTCAAGATTGGGAAGCCAAAACACATTACCTTCATTAGGATACATGACATTGATGCTT
* * * * * *
1238750 TGGTGTCGTAGGAAAAGTTTTTCTTTTCGTCGTTTTTGATAGATTCAAAGTTTGTCTTTTAAATG
371 TGGTGTCGCAAGAAAAGCTTTTC-TTTCCTCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAAT-
* **
1238815 ATGATAAACATGAATACTCACACTAATCCCCATTCTTTTTTG
434 AAGATAAACATGAATACTCACACTAATCCCCATTCTTTTCAG
* * ** *
1238857 GATTAGG-ACCCGTAAACATAGTCTTCTCATTAACATACATGATATTGATGCCTTGGTTTCGCAA
1 GATTAGGCA-CCATAAACATATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCGCAA
* * * ** * * *
1238921 TAAAGGCTTTCATCTCATGAATTTTTGAAAACTCTAAGTTCATGCTTCAAATGAGACAAACTTGG
65 CAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACTTGG
*
1238986 ATTCTAGTAATGATCTTCATTCATTTTGTGA-ACAGACACAATAAACACATTCTCCTCATTAGGA
130 ATTCTAGTAATGATCTTCATTCATTTTGTGATA-AGGCACAATAAACACATTCTCCTCATTAGGA
* * *
1239050 TAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCTTATTTTTCCTTAAAATT
194 TAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA-TTTTCCTTAAAATC
* *
1239115 AAAGTTCCTCCCTTAAATACA-ACAAACATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATT
258 AAAGTTCATCCCTTAAATA-AGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATT
* * * *
1239179 GGGAA-CCAAAAACACA-AACCCTTCATTAGGATCCATGACTTTAATGCTTTGGTG-CTGCAAGA
322 GGGAAGCC-AAAACACATTA-CCTTCATTAGGATACATGACATTGATGCTTTGGTGTC-GCAAGA
* * * * * **
1239241 AAAGCTTTTCATTCCACCGTTTTTGATAGAATTAAAGTTTATCTCTTAAATAAAATATGCATGAA
384 AAAGCTTTTCTTTCC-TCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAA
* *
1239306 TACTCACAGTAATCCTCATTCTTTTCAG
448 TACTCACACTAATCCCCATTCTTTTCAG
* * * * * * *
1239334 GATTAGGCACCATAGACACATTC-ACTTCATTAGGATACACGTTATTGATGCTTCGGTTTCACAA
1 GATTAGGCACCATAAACATATTCTTC-TCATTAGGATACATGATATTGATGCTTTGGTTTCGCAA
***** * * * ** **
1239398 CAAAGGCTTTCTTCCTGGTTATTTTTGTAAAGTCTACGTTCGTACCTCAAATGAGGTACGCTTGG
65 CAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACTTGG
* * * *
1239463 ATTCTAGTAATGGTCTTCATTCATTTTGTGATTAGGCACAAAAAACACATTTTCCTCATTAGGAT
130 ATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACAATAAACACATTCTCCTCATTAGGAT
* * *
1239528 AAAGGATATTGATGATTTTCTTTTGC-TCGAAAATCTTTTCTTTGCCCTATTTTTCTTAAAATCA
195 AAATGATATTGATGATTTTCTTTTGCAT-GGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCA
* *
1239592 AAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTCCGTTCTTTTCAAGATTGG
259 AAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGG
** * * * * * * **
1239657 GAAGCTGAAACACATTCCCTTTATTATGATACATGACAATGATGCTTTGGGGTTGTGAGAAAAGC
324 GAAGCCAAAACACATTACCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGC
* * * * *
1239722 TTTTCTTTCCACCATTTTTGATAAAATCAAAGTTTGTCTCTTAAAAAAGACAAACATGAATACTC
389 TTTTCTTTCC-TCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTC
* * * * *
1239787 ATACAAATCCCTACTCTTTTCAA
453 ACACTAATCCCCATTCTTTTCAG
* *
1239810 GATTAGGCGCCATAAACATAGTT-TTCTCATTAGGATACATGATATTAATGCTTTGGTTTCGCA
1 GATTAGGCACCATAAACATA-TTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCGCA
1239873 GTGTTAGGAT
Statistics
Matches: 2071, Mismatches: 340, Indels: 95
0.83 0.14 0.04
Matches are distributed among these distances:
472 68 0.03
473 133 0.06
474 107 0.05
475 208 0.10
476 557 0.27
477 430 0.21
478 148 0.07
479 6 0.00
480 2 0.00
482 1 0.00
483 2 0.00
486 2 0.00
487 1 0.00
489 1 0.00
490 2 0.00
491 2 0.00
492 304 0.15
493 43 0.02
494 54 0.03
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (475 bp):
GATTAGGCACCATAAACATATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCGCAAC
AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACTTGGA
TTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACAATAAACACATTCTCCTCATTAGGATA
AATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAA
GTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGA
AGCCAAAACACATTACCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTT
TTCTTTCCTCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACA
CTAATCCCCATTCTTTTCAG
Found at i:1238394 original size:17 final size:17
Alignment explanation
Indices: 1238372--1238405 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1238362 GGATAAGGCG
1238372 CCATAAACATACTCTTC
1 CCATAAACATACTCTTC
*
1238389 CCATAAACATAGTCTTC
1 CCATAAACATACTCTTC
1238406 TTATTAGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.29
Consensus pattern (17 bp):
CCATAAACATACTCTTC
Found at i:1240203 original size:13 final size:13
Alignment explanation
Indices: 1240185--1240209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1240175 AGATTGCACA
1240185 GTATCGATACATT
1 GTATCGATACATT
1240198 GTATCGATACAT
1 GTATCGATACAT
1240210 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1240318 original size:13 final size:13
Alignment explanation
Indices: 1240300--1240325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1240290 ACACACAATA
1240300 TGTATCGATACAT
1 TGTATCGATACAT
1240313 TGTATCGATACAT
1 TGTATCGATACAT
1240326 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1240341 original size:33 final size:32
Alignment explanation
Indices: 1240280--1240347 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1240270 CCTTAACTGT
*
1240280 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
1240312 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1240345 TTG
1 TTG
1240348 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1246665 original size:20 final size:20
Alignment explanation
Indices: 1246630--1246670 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1246620 CAAATTTCTT
1246630 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
1246652 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
1246671 AACAGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:1248960 original size:13 final size:13
Alignment explanation
Indices: 1248942--1248966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1248932 AGATTGCACA
1248942 GTATCGATACATT
1 GTATCGATACATT
1248955 GTATCGATACAT
1 GTATCGATACAT
1248967 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1249074 original size:13 final size:13
Alignment explanation
Indices: 1249056--1249081 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1249046 ACACACAATA
1249056 TGTATCGATACAT
1 TGTATCGATACAT
1249069 TGTATCGATACAT
1 TGTATCGATACAT
1249082 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1249097 original size:33 final size:32
Alignment explanation
Indices: 1249036--1249103 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1249026 CCTTAACTGT
*
1249036 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
1249068 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1249101 TTG
1 TTG
1249104 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1250891 original size:158 final size:155
Alignment explanation
Indices: 1250724--1251054 Score: 405
Period size: 158 Copynumber: 2.1 Consensus size: 155
1250714 TTCTTTTCAG
* * ** * * *
1250724 GATTAGGCACCATAAATATAGTCTTTTCA-TTAGGATACACGATATTTATGTTTTGGATTT-GCA
1 GATTAGGCACCATAAACACAGTCTCCT-ATTTAAGATACACGATATTGATGCTTTGG-TTTCGCA
* * ** * *
1250787 AGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTATGTTTGTGCCTTAAATGTGACAAACATG
64 ACAAAGGC-TTTTTCCCACCAATTTTTGTAAAGTCTAAGCCT-TGCCTCAAATGAG-CAAACATG
1250852 GATTCTACTAATGATCTTCATTCAATTTGT
126 GATTCTACTAATGATCTTCATTCAATTTGT
*
1250882 GATTAGGCACCATAAACACATTCTCCTATTTAAGATACACGATATTGATGCTTTGGTTTCGCAAC
1 GATTAGGCACCATAAACACAGTCTCCTATTTAAGATACACGATATTGATGCTTTGGTTTCGCAAC
* *
1250947 AAAGGCTTTTTCCCACCAATTTTTGTAAAGTCTAAGCCTTGCGTCAAATGAGCAAACTTGGATTC
66 AAAGGCTTTTTCCCACCAATTTTTGTAAAGTCTAAGCCTTGCCTCAAATGAGCAAACATGGATTC
* * *
1251012 TAGTAATGATCTTCTTTCATTTTGT
131 TACTAATGATCTTCATTCAATTTGT
* * *
1251037 AATTAGGGACAATAAACA
1 GATTAGGCACCATAAACA
1251055 TGTTCTCCTC
Statistics
Matches: 149, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
155 49 0.33
156 10 0.07
157 34 0.23
158 56 0.38
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (155 bp):
GATTAGGCACCATAAACACAGTCTCCTATTTAAGATACACGATATTGATGCTTTGGTTTCGCAAC
AAAGGCTTTTTCCCACCAATTTTTGTAAAGTCTAAGCCTTGCCTCAAATGAGCAAACATGGATTC
TACTAATGATCTTCATTCAATTTGT
Found at i:1251052 original size:155 final size:158
Alignment explanation
Indices: 1250750--1251086 Score: 423
Period size: 155 Copynumber: 2.2 Consensus size: 158
1250740 TATAGTCTTT
* * * *
1250750 TCATTAGGATACACGATATTTATGTTTTGGATTTGCAAGAAAGGCATTTTTCCCACCAATTTTTG
1 TCATTAAGATACACGATATTGATGCTTTGGATTTGCAACAAAGGCATTTTTCCCACCAATTTTTG
* ** * *
1250815 TAAAGTCTATGTTTGTGCCTTAAATGTGACAAACATGGATTCTACTAATGATCTTCATTCAATTT
66 TAAAGTCTAAGCCTGTGCCTCAAATGAGACAAACATGGATTCTACTAATGATCTTCATTCAATTT
* *
1250880 GTGATTAGGCACCATAAACACATTCTCC
131 GTAATTAGGCACAATAAACACATTCTCC
1250908 T-ATTTAAGATACACGATATTGATGCTTTGG-TTTCGCAACAAAGGC-TTTTTCCCACCAATTTT
1 TCA-TTAAGATACACGATATTGATGCTTTGGATTT-GCAACAAAGGCATTTTTCCCACCAATTTT
* * * * *
1250970 TGTAAAGTCTAAGCCT-TGCGTCAAATGAG-CAAACTTGGATTCTAGTAATGATCTTCTTTCATT
64 TGTAAAGTCTAAGCCTGTGCCTCAAATGAGACAAACATGGATTCTACTAATGATCTTCATTCAAT
* **
1251033 TTGTAATTAGGGACAATAAACATGTTCTCC
129 TTGTAATTAGGCACAATAAACACATTCTCC
* * *
1251063 TCATTAGGATAAATGATATTGATG
1 TCATTAAGATACACGATATTGATG
1251087 ATTTTCTTTT
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
155 74 0.48
156 11 0.07
157 34 0.22
158 35 0.23
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (158 bp):
TCATTAAGATACACGATATTGATGCTTTGGATTTGCAACAAAGGCATTTTTCCCACCAATTTTTG
TAAAGTCTAAGCCTGTGCCTCAAATGAGACAAACATGGATTCTACTAATGATCTTCATTCAATTT
GTAATTAGGCACAATAAACACATTCTCC
Found at i:1252019 original size:420 final size:406
Alignment explanation
Indices: 1251220--1252039 Score: 1006
Period size: 420 Copynumber: 2.0 Consensus size: 406
1251210 ACACATTCTG
* *
1251220 TTCATTAGATATATGACATTGATGCTTTGGTGTCGTAAAAAAAGCTTTTCTTTCCTCTGTTTTTG
1 TTCATTAGATAAATGACATTGATGCTTTGGTATC-TAAAAAAAGCTTTTCTTTCCTCTGTTTTTG
**
1251285 ATAGAACCAAAGTTTCTCTCTTAAATAAGACAAACATGAAAACTTACACTAATCCCAATTCTTTT
65 ATAGAACCAAAGTTTCTCTCTTAAATAAGACAAACATGAAAACCCACACTAATCCCAATTCTTTT
* * * *
1251350 CAGGATTAGGCACCATAAATATAGTCTTCTCATTAATTGATTCTTTGGTTTCACAACAAAGGCTT
130 CAGGATTAGGCACCATAAACACAGTCTTCTCATTAATTGATGCTTTAGTTTCACAACAAAGGCTT
* ** * *
1251415 TCTTGCTGCCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGAGACAAACTTAGATTCTAGCA
195 TCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGAGACAAACATAAATTCTAGCA
* * * **
1251480 ACGATCTTCATTCATTTTCTAATTAGGCACAAAAAACACATTCTCTTTATTGTGATAAATGATAT
260 AAGATCTTCATTCATTTTCTAATAAGGCACAAAAAACACATTCTCCTTATTAAGATAAATGATAT
* * * *
1251545 TGATGATTTTCTTTTGCATGGAAATCTTTTTTTTGCCCTATTTCCCTTAAATCAAAGTTTATCCC
325 TGATGATTTTCTTTTACATGAAAATCTTTTCTTTGCCCTATTTCCCTTAAATCAAAGTTCATCCC
1251610 TTAAATAAGATATTGCC
390 TTAAATAAGATATTGCC
*
1251627 TTCATTAGGATAAATGACATTGATGCTTTGGTAT-TACAAGAAAATCTTTTCTTTCGC-CTGTTT
1 TTCATTA-GATAAATGACATTGATGCTTTGGTATCTA-AA-AAAAGCTTTTCTTTC-CTCTGTTT
* * * * *
1251690 TTGATAGAATCAAAGTTTGC-CTTTTAAATAAGATAAACATGAATACCCACACTAATCCCCATTT
62 TTGATAGAACCAAAGTTT-CTCTCTTAAATAAGACAAACATGAAAACCCACACTAAT-CCCAATT
* *
1251754 TTTTTCAGGATTAGGCACCATAAACACA-TTTTCCTCACTAAGATACATGATATTGATGCTTTAG
125 CTTTTCAGGATTAGGCACCATAAACACAGTCTT-CT--C----AT---T-A-ATTGATGCTTTAG
** *
1251818 TTTTGCAGCAAAGGCTTT-TCTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGAGA
178 TTTCACAACAAAGGCTTTCT-TCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGAGA
* * * * ** *
1251882 CAAACATAAATTCTAGTAAAGATCTTCATTCTTTTTGTGATAAGGCATTATAAACACATTCTCCT
242 CAAACATAAATTCTAGCAAAGATCTTCATTCATTTTCTAATAAGGCACAAAAAACACATTCTCCT
* *
1251947 TGTTAAGATAAATGATATTGATGATTTTGTTTTACATGAAAATCTTTTCTTTG-CCTATTAT-CC
307 TATTAAGATAAATGATATTGATGATTTTCTTTTACATGAAAATCTTTTCTTTGCCCTATT-TCCC
*
1252010 TTCAAATCAAAGTTCATCCCTTGAATAAGA
371 TT-AAATCAAAGTTCATCCCTTAAATAAGA
1252040 CAAGCATCGT
Statistics
Matches: 349, Mismatches: 43, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
406 2 0.01
407 9 0.03
408 95 0.27
409 35 0.10
411 1 0.00
415 2 0.01
418 1 0.00
419 12 0.03
420 192 0.55
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (406 bp):
TTCATTAGATAAATGACATTGATGCTTTGGTATCTAAAAAAAGCTTTTCTTTCCTCTGTTTTTGA
TAGAACCAAAGTTTCTCTCTTAAATAAGACAAACATGAAAACCCACACTAATCCCAATTCTTTTC
AGGATTAGGCACCATAAACACAGTCTTCTCATTAATTGATGCTTTAGTTTCACAACAAAGGCTTT
CTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGAGACAAACATAAATTCTAGCAA
AGATCTTCATTCATTTTCTAATAAGGCACAAAAAACACATTCTCCTTATTAAGATAAATGATATT
GATGATTTTCTTTTACATGAAAATCTTTTCTTTGCCCTATTTCCCTTAAATCAAAGTTCATCCCT
TAAATAAGATATTGCC
Found at i:1252554 original size:476 final size:477
Alignment explanation
Indices: 1251621--1257852 Score: 2673
Period size: 476 Copynumber: 13.1 Consensus size: 477
1251611 TAAATAAGAT
* * * * ** * *
1251621 ATTGCCTTCATTAGGATAAATGACATTGATGCTTTGGTATTACAAGAAAATCTTTTC-TTTCGCC
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* * * *
1251685 TGTTTTTGATAGAATCAAAGTTTGCCTTTTAAATAAGATAAACATGAATACCCACACTAATCCCC
66 -ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAATCCCC
* * * *
1251750 ATT-TTTTTTCAGGATTAGGCACCATAAACACA-TTTTCCTCACTAAGATACATGATATTGATGC
130 ATTCTTTTTT-AGGATTAAGCACCATAAACACAGTCTT-CTCACTAGGATACACGATATTGATGC
* ** *
1251813 TTTAGTTTTGCAGCAAAGGCTTT-TCTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAA
193 TTTGGTTTCACAACAAAGGCTTTCT-TCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAA
* * *
1251877 TGAGACAAACATAAATTCTAGTAAAGATCTTCATTCTTTTTGTGATAAGGCATTATAAACACATT
257 TGAGACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACACATT
** * * * *
1251942 CTCCTTGTTAAGATAAATGATATTGATGATTTTGTTTTACATGAAAATCTTTTCTTTG-CCTATT
322 CTCCTCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTTCTTTGCCCTATT
*
1252006 ATCCTTCAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCG-TGTCTCATAACAGTCTCCATT
387 ATCCTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGAT-TCTCATAACAGTCTCCATT
* * **
1252070 CATTTCAAGATTGGGAAGCCAAAATGC
451 CTTTTCAAGATTGGGAAGACAAAACAC
* * * *
1252097 ATTGCCTTCGTTAAGATACACGACATTGACGTTTTGGTGTCGCAAGAAAGGCTTTTCTTTTTGCC
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* * *
1252162 ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACTTGAATACTGACACTAATCCCTA
66 ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAATCCCCA
* ** * *
1252227 TTCTTTTTT-GGATTAAGCACCATAAACATAGTCTTCTCTTTAGGGTACACGATATTGATACTTT
131 TTCTTTTTTAGGATTAAGCACCATAAACACAGTCTTCTCACTAGGATACACGATATTGATGCTTT
*
1252291 GGTTTCACAACGAAAGG-TTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGA
196 GGTTTCACAAC-AAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGA
* ** * * *
1252355 GACAAACTTGGATTCTAGTAATGATCTTTATTCATTTTCTGATTAGGCA-TAATAAACACATTCT
260 GACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACT-ATAAACACATTCT
* * * * * * *
1252419 CCTCATTAGGATAAATGATATTGATGATTTTTTTTTGCATAGAAATCTTTTCTTTACCCTATTTT
324 CCTCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTTCTTTGCCCTATTAT
* * * * *
1252484 TCTTAAAATCAAAGTTCATCCCTTAAATAAGATAAGCATCGATTCT-AGTAACAGTCGCCCTTCT
389 CCTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCA-TAACAGTCTCCATTCT
* *
1252548 TTTCAAGGTTGGGAAGCCAAAACAC
453 TTTCAAGATTGGGAAGACAAAACAC
* * * * * **
1252573 ATTGCCTTCGTTAGGATAAACGACATTGTTGCTTTTGTGTTGCAAGAAAAGCATTTCTTCCCT-C
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTT-TTTGC
** * * * *
1252637 TGTTTTTGATAGAATCCAAGTTTGTCTCTTAAATAAGATAAACACGAATTC-CTACACCAATCCC
65 CATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTC-ACACTAATCCC
* * * * * *
1252701 CATTC-CTTTCAGGATTAGGCACTATAAACACATTCTCCTCACTAGGATACACGATATTGATGCT
129 CATTCTTTTTTAGGATTAAGCACCATAAACACAGTCTTCTCACTAGGATACACGATATTGATGCT
* * *
1252765 TTGGTTTCGCAACAAAGGCTTTCTTCTCACCAATTTTTGTAAAGTCTAAGTTCGTG-TCTCATAT
194 TTGGTTTCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCT-TCAAAT
* * *
1252829 GAGACAAACATGAATTCTAGTAATGATCTTCATTCTTTTTGTGATAAGGCACTATAAACACATTA
258 GAGACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACACATTC
* * * *
1252894 TCCTCGTTAGGATAAACGACATTGATGATTTTCTTTTACATGGAAATCTTTTCTTTGCCTTATTA
323 TCCTCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTTCTTTGCCCTATTA
* * * * *
1252959 TCCTTAAAATCGAAGTTCACCCCTTGAATAAGACAAGCATCGAGTCTCACAATAGTCTCCATTCT
388 TCCTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCT
* * *
1253024 TTTCAAGATTGGCAAAACAAAAAAC
453 TTTCAAGATTGGGAAGACAAAACAC
** * * * * **
1253049 ATTGTTTTCATTACGATACACGACATTGAGGCTTTGGTGTTGCAAGAAAAGCTTTT-TTTTCACC
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* * * *
1253113 GTTTTTGATAGAATCAAAGTTTGTCTCATAAATAAGATAAACATAAATACTCACACTAATCCCTA
66 ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAATCCCCA
* * * * *
1253178 TTCATTTCTAGATTAGGTGCCATAAACACACTCTTCCCATAAACATAGTCTACTCATTAGGATAC
131 TTC-TTT-T---TTA-G-G--ATTAA-GCA------CCATAAACACAGTCTTCTCACTAGGATAC
* * * *
1253243 ACTATATTGATGCTTTGGTTTCACAACAAAGGCTTTCTTCTCACGAATTTTTGAAAAGTCTAAGT
180 ACGATATTGATGCTTTGGTTTCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGT
* * * **
1253308 TCGTGCTTGAAATGAGACAAACTTAGATTCTAGTAACAATCTTCATTCATTTTGTGATAAGGCAC
245 TCGTGCTTCAAATGAGACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCAC
* * * * *
1253373 TATAAACATATTCTCCTTATTAAGATAAACGACATTAATGA-CTTTTTTTGCATGGAAATCTTTT
310 TATAAACACATTCTCCTCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTT
* * *
1253437 CTTTGCCCTATTATCCTTCAAATCAAAATTCA-CCCTTTGAATAAGACAAGCATTGATTCTCATA
375 CTTTGCCCTATTATCCTTAAAATCAAAGTTCATCCC-TTGAATAAGACAAGCATCGATTCTCATA
1253501 ACAGTCTCCATTCTTTTCAAGATTGGGAAGACAAAACAC
439 ACAGTCTCCATTCTTTTCAAGATTGGGAAGACAAAACAC
* * * * *
1253540 ATTGCCATCGTTAGGATACATGGCATTGATGCTTTGGTGTCGCAGGAAAAGCTTTTCTTTTTGTC
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* ** *
1253605 ATTTTTGATAGATTCTTTTCTTTGCCTTAAAATCAATGTTCATCTCTTAAATAAGATAAGCATCG
66 ATTTTTGAT--A-----------G------AATCAAAGTTTGTCTCTTAAATAAGATAAACAT-G
* * * * * * * * ** * * * * *
1253670 -ATTCTTATAATAGTCTCCATTC-TTTTCAAGATTGGGAAGC-TGGAACACATTCCATT-T-ATT
111 AATACTCACACTAATCCCCATTCTTTTTTAGGATTAAGCACCAT-AAACACAGT-C-TTCTCACT
* * * * ** ** ** * *
1253730 AAGATACATGACAATGATGCTTTGGGGTCGTGAGA-AAAGATTTTCTTTCCACC--GTTTTGATA
173 AGGATACACGATATTGATGCTTTGGTTTC-ACA-ACAAAGGCTTTCTTCCCACCAATTTTTG-TA
* * * * ** * * * * * * *
1253792 AAATCAAAGTTTGT-CTCTTAAAAAAGACAAACATGAATACTCA-TACTAATCCT-AATCCTTTT
235 AAGTCTAAGTTCGTGCT-TCAAATGAGACAAACATAAATTCT-AGTAATGATCTTCATTCATTTT
** * * * * * * * * * ** *
1253854 CAAGATTAGGCACCATAAACATAGTT-TTCTCATTAGGATACATGATATT-AGTGCTTTACTTTC
298 -GTGATAAGGCACTATAAACACA-TTCTCCTCATTAAGATAAACGACATTGA-TGATTTTTTTTT
* * * * * ** *
1253917 GCA-AGAAAGTC-TTTCTTCCTG-CCAATT-T-TTGTAAAGTTTAAGTTCATGCCTCT-AA-AGA
360 ACATGGAAA-TCTTTTCTT--TGCCCTATTATCCT-TAAAATCAAAGTTCATCCCT-TGAATA-A
* * * * * * * ** *
1253975 GACAAACATGGGTTCT-ACTAA-TGATCTTCATTCTTTTTC-TGATT-AG-CCACTATAAAGAC
419 GACAAGCATCGATTCTCA-TAACAG-TCTCCATTC-TTTTCAAGATTGGGAAGAC-A-AAACAC
* * * * * ** *** * *
1254034 ATT-CTCCTCATTAGGATAAATGACATTGATGATTTTCT-TTTAAATGGAAATCTTTT-TTTTCT
1 ATTGC-CTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAA-GAAAAGCTTTTCTTTT-T
*** * ** * * * * **
1254096 -CCTATTTTCCTTAAAATCAAAGTTCATCTCTTAAATAAGACAAGCATCG-ATTCTCATAAC-GG
63 GCC-ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACAT-GAATACTCA-CACTAA
* * * * * * * * * * * **
1254158 TCTCCACTC-TGTTCAAGATTGAGAACCAAAAACACATTCCCTT-T-ATTAGGATACATGACGTT
125 TCCCCATTCTTTTTTAGGATTAAGCACCATAAACACAGT--CTTCTCACTAGGATACACGATATT
* * * * * * * **
1254220 GATGCTTTGGTGTCACAAGAAAAGCTTTTCTTTCCACC-ATCTTTG-ACAGAATCAAAGTTTAT-
188 GATGCTTTGGTTTCACAACAAAGGC-TTTCTTCCCACCAATTTTTGTA-A-AGTCTAAGTTCGTG
* * * ** * * * * * ** * *
1254282 CTTTTAAATAAGACAAATACGAATACTCA-TACTAATC-CCTATTCTTTTTAAGATTAGGC-CAA
250 C-TTCAAATGAGACAAACATAAATTCT-AGTAATGATCTTC-ATTCATTTTGTGATAAGGCAC-T
* * * * * * * * * * * **** ** *
1254344 ATAAACATAGTCTTCTCATTAGGCTACATGATACTAATG-CTTTGGAGT-CGAAAGAAAGGC-TT
311 ATAAACACATTCTCCTCATTAAGATAAACGACATTGATGATTTTTTTTTAC-ATGGAAA-TCTTT
* * ** * * * *
1254406 TCTTCT-CACTAATT-T--TTATAAAGTCTAAGTTCA-CGCCTCAAATGAGACAAACTTGGATTC
374 TCTT-TGCCCT-ATTATCCTTA-AAA-TCAAAGTTCATC-CCTTGAATAAGACAAGCATCGATTC
** * * * ** *
1254466 TGGTAA-TGATCTTCTTTCATTTT-GTGATTAGGCACA-AC-AAACAC
434 TCATAACAG-TCTCCATTC-TTTTCAAGATT-GGGA-AGACAAAACAC
* * ** * * ** * * ** *
1254510 ATT-CACCTCCTTAGGATACGTGATATTGATGATTTTATTTTGCTCGAAAA--TGTTTC-CTTTG
1 ATTGC-CTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCT-TTTCTTTTTG
** * * ** * * * ** **
1254571 CCTTATTTTCCATAAAATCAATGTTCATC-CTTTAAACAAGACAAGCATCG-ATTTTCGTTA-TA
64 CC--ATTTTTGATAGAATCAAAGTTTGTCTC-TTAAATAAGATAAACAT-GAATACTC-ACACTA
* * * ** * * * * *
1254633 GTCTCCATTC-TTTTTAAGATTGGGAAGCCA-AAACACATTCCCTT-T-ATTAGGATACATGACA
124 ATCCCCATTCTTTTTTAGGATTAAGCA-CCATAAACACAGT--CTTCTCACTAGGATACACGATA
* * * * * *
1254694 TTGATGCTTT-GTTGTCATAAGAAAAGCATTACTTTCCACC-ATTTTTGATTGAA-T-TAAAGTT
186 TTGATGCTTTGGTT-TCACAACAAAGGC-TTTCTTCCCACCAATTTTTG--TAAAGTCT-AAGTT
* * * * * * * * *
1254755 TGT-CTCCAAAATAAGACAAACATGAATACTCA-TACTAATC-CCAATTC-TTTTCAG-GATTAG
246 CGTGCTTC-AAATGAGACAAACATAAATTCT-AGTAATGATCTTC-ATTCATTTT--GTGATAAG
* * * * * * ** * * * * * *
1254815 GCACCATAAATAGAGTC-CTCACATTAGGATTCACAATATTAATG-CTTTGTTTT-CGTAGGAAA
306 GCACTATAAACACATTCTC-CTCATTAAGATAAACGACATTGATGATTTTTTTTTACAT-GGAAA
* * * ** * * * * * * * ** ** * * * *
1254877 GGCATTCCTCCGACCAATT-T-TTGTAAAGTCTAGGTTCGTGTCTCAAATGAGATAAACATGGAT
369 -TCTTTTCTTTGCCCTATTATCCT-TAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGAT
* * * * **** * ** *
1254940 TTTGA-AA-ATGATATTCATTCTTTTTGTTATT-AG-CCACTATGAACAC
432 TCTCATAACA-G-TCTCCATTCTTTTCAAGATTGGGAAGAC-A-AAACAC
* * * * * * * * * * * ** ** *
1254986 ATTCTCCTT-ATTAGGATAAATGATATTAATGATTTTGTTTTGCATGGGAATATTTTC--TTTAC
1 ATT-GCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGC
* ** ** * * * ** * *
1255048 CCTCCTT-A-A-AA-CTAAAGTTCATCCCTTAAATAAGACAAGCATCTATTCTCATAAC-AAT-C
65 CATTTTTGATAGAATC-AAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCA-CACTAATCC
* * * ** * * * * * **
1255107 TCATTC-TTTTCAAGATTGGGAACCAAAAACACA-TAC-CCTACATTAGGATATATTATATTGAT
128 CCATTCTTTTTTAGGATTAAGCACCATAAACACAGT-CTTCT-CACTAGGATACACGATATTGAT
* * * * * * * * *
1255169 GCTTTGGTGTT-GCGAGAAAAGCTTTTCTTTCTACC-CTTTTTGATAGAA-TCAAAGTTTGT-C-
191 GCTTTGGT-TTCACAACAAAGGC-TTTCTTCCCACCAATTTTTG-TA-AAGTCTAAGTTCGTGCT
* * * * * * * * * * *
1255229 TCGTAAATAAGAAAAACATGAATACTCA-CAATAATCCTCTTTCCTTTTAG-GATTAGGCACCAT
252 TC--AAATGAGACAAACATAAATTCT-AGTAATGATCTTCATTCATTTT-GTGATAAGGCACTAT
*** * * * * * * ** * ** **
1255292 AAACGTGGTT-TTCACATTAGGGTCCAAA--ATATTGATGCTTTGGTTTCACAACGAAGGC-TTT
313 AAAC-ACATTCTCCTCATTAAGAT--AAACGACATTGATGATTTTTTTTTACATGGAAATCTTTT
* * * * * * * ** * * * *
1255353 C-TTCCCACCAAT-TCTTGTAAAGTCCAAGTTCATGCCTCAAATGAGACAAACTTGGATTCT-A-
375 CTTTGCC-CTATTATCCT-TAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCAT
* ** ** * * *
1255414 AAAATGATCTTTATTCGTTTT-GTGACTGGCATA-A-TAAACAC
438 AACA-G-TCTCCATTC-TTTTCAAGATTGGGA-AGACAAAACAC
* * * * * *
1255455 ATT--C-TC--T----T------CATTAATGCTTTGGTGTTGCAAGAAAAGTTTTTCTTTCTACT
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* ** * *
1255505 A-TTTTGATAGAATCAAAGTTTGTCTCTTAAATATGCCAAACATGAATACTCATACTAATCCACA
66 ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAATCCCCA
* * * * * * * *
1255569 TTC-ATTTCAGGATTAGGCACCATAAATGA-AATCTTCTCATTAGGAT-----ATATTCATGTTT
131 TTCTTTTTTAGGATTAAGCACCATAAA-CACAGTCTTCTCACTAGGATACACGATATTGATGCTT
* * * * *
1255627 TGGTTTCGCAACAAAGGCTTTCTT-CCATCAATTTTTGTAAAGTCTAAATTCGTGCCTCTAATGA
195 TGGTTTCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGA
* * * * * * *
1255691 GACAAACATGAATTCTAGAAATGGTCTCCA-TCTTTTTGTGATTAGGCACTATAAACACATTCTA
260 GACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACACATTCTC
* * * * * *
1255755 CTCATTAAGATAAATGACATTGATGATTTTCTTTTGCATGGAAATCTTTTCCTTACCCTATT-TT
325 CTCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTTCTTTGCCCTATTATC
* * * * * **
1255819 CTTAAAATAAAAGTTCATCCCTTAAATAAGACAAGCATCAATTCTCGTAATAGTCTCCATTCCAT
390 CTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTT
*
1255884 TCAAGATTGGGAA-CCAAAAACAC
455 TCAAGATTGGGAAGAC-AAAACAC
** * * * ** ****
1255907 ATACCCTTCATTAGGATACAAGACATTGATGCTTTAGTGTCGTGAGAAAAGCTTTTCTTTCCATC
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* * * *
1255972 ATTTTTGATAGAATCAAAGTTTGTCTCTTAACTAAAAACAAACATAAATACTCA-AGCTAATCCC
66 ATTTTTGATAGAATCAAAGTTTGTCTCTTAAAT-AAGATAAACATGAATACTCACA-CTAATCCC
* * * ** * * * * * *
1256036 CA-T-TTTTTGAAGATTAGGTGCCATAAATATAGTCTTCTAATTAGGATACATGATTTTGATGCT
129 CATTCTTTTTTAGGATTAAGCACCATAAACACAGTCTTCTCACTAGGATACACGATATTGATGCT
* ** *
1256099 TTGGTTAT-GCAATGAAGGCTTTCTTCCCATCAATTTTTGTAAAGTCTAAGTTCGTGCCTCATTC
194 TTGGTT-TCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTG-------C
* ** * * * *
1256163 GTGCCTCAAATGAGACAAACTTGGATTCTAGTAATAATCATT-TTTCTTTTTGTGATTAGGCA-T
251 -T---TCAAATGAGACAAACATAAATTCTAGTAATGATC-TTCATTCATTTTGTGATAAGGCACT
* * * * * * *** *
1256226 AATAAACACATTCACCTCATTAGGATAAATGAAATTGATAATTTTCTTTTGGTTGAAAATCTTTT
311 -ATAAACACATTCTCCTCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTT
* * * * * *
1256291 CTTTGCCCTATTTTCCTTAAAATCAATGTTCATCCCTTAAATAAGATAAGTATCGATTCTCGTAA
375 CTTTGCCCTATTATCCTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCATAA
* *
1256356 TAGTCTCCATTCTTTTCAAGATTGGGAAG-CTGAAACAC
440 CAGTCTCCATTCTTTTCAAGATTGGGAAGAC-AAAACAC
* * ** * * * **
1256394 TTTCCCTTTATATTAGGATACATGAGATTGATGCTTTGGTGCCGTGAGAAAAGCTTTTCTTTACA
1 ATTGCC-TT-CGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT---
* * * *
1256459 TTG---TTTTTGATAAAATCAATGTTTGTCTCTTAAATAAGACAAACATTAATACTCACACTAAT
61 TTGCCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAAT
* * * * * * * *
1256521 -CCCATTTCTTTTTAAGG-TTAGGCACCATAAACAAAGTCTTCTCATTAGGGTGCACAATATTAA
126 CCCCA-TTCTTTTTTAGGATTAAGCACCATAAACACAGTCTTCTCACTAGGATACACGATATTGA
* ** *
1256584 TGCTTTGGTTTCGCAGGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
190 TGCTTTGGTTTCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCA
* ** * ** * * *
1256649 AATAAGACAAACATGGATTCTAGTAAAGATCTTCATTTTTTTTCTGATTAGCCACTATAAACACA
255 AATGAGACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACACA
* * * * * * *
1256714 TTCTCCTTATTAGGGA-CAATGATATTGATGATTTTCTTTTATATGGAAATCTTTTCTTT-CCCT
320 TTCTCCTCATTA-AGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTTCTTTGCCC-
* * * *
1256777 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCAATTCTCGTAACAGTCTCC
383 TATTATCCTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCATAACAGTCTCC
* *
1256842 ATTCTTTTCAAGATTGTGAA-CCAAAAACAC
448 ATTCTTTTCAAGATTGGGAAGAC-AAAACAC
** * ** * * ** ***
1256872 ATACCCTACAATAGGATACATGACATTGATGCTTTGGTGTCACGTGAAAAGCTTTTCTTTCCACC
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* * *
1256937 ATTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATGAATACTTACACTAATCCCCA
66 ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAATCCCCA
* * *
1257002 TTC-TTTTCAGGATTAGGCACCATAAACACAGTCTTCTCA-TAAGGATACATGATATTGATGCTT
131 TTCTTTTTTAGGATTAAGCACCATAAACACAGTCTTCTCACT-AGGATACACGATATTGATGCTT
* * * * * *
1257065 TGGTTTCGCAACAAAGGCTTTCTTCCCACCAATTTTTGAAAAGTCTGAGTTTGTAAC-TCTAATG
195 TGGTTTCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGT-GCTTCAAATG
* * * * * * *
1257129 GGACAAACTTGAATTCTAGCAATGATCTTCATTCTTTTTGTGATTAGTCACTATAAACACATTCT
259 AGACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACACATTCT
* ** * * * * * * *
1257194 TCTCATTCGGATAAATGATGCA--GCTAATTTTCTTTTACATGAAAATCTTTTCTTTACCTTATT
324 CCTCATTAAGATAAACGA--CATTGATGATTTTTTTTTACATGGAAATCTTTTCTTTGCCCTATT
* * * * * *
1257257 TTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGACAGGCATCGATTCTCATAGCAGTCTCCATTT
387 ATCCTTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTC
* *
1257322 TTTTCAAGATTGCGAAGCCAAAACAC
452 TTTTCAAGATTGGGAAGACAAAACAC
* * ** * * * * ****
1257348 AATCCCTTTATTAAGATACAAGACATTGATGCTTTGGTGTCACAAGAAAAGCCTTT-TTTCCAAC
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
* * * * *
1257412 ATTTTTGATAGAATCAAAGTTTATCTCTTAAATAA-A-ATAC--GAATACTCGCACTAATCACCG
66 ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAATCCCCA
* * *** * * *
1257473 TT-GTTTTTAGGATTAGGCACCATAAATGTAGTCTTCTGATTAGGATACATGATATTGATGCTTT
131 TTCTTTTTTAGGATTAAGCACCATAAACACAGTCTTCTCACTAGGATACACGATATTGATGCTTT
** * *
1257537 GGTTTTGCAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCCAAGTTCGTGCCTCAAATGAG
196 GGTTTCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGAG
* * ** * * * * * *
1257602 ATAAACTTGGATTCTAGTAATGATCTTAATTCATTTTGTGATTAGGCACAACAAACATATTCACC
261 ACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACACATTCTCC
* * * ** * * * *
1257667 TCATTAGGATAAAAGATATTTTTGATTTTTTATTGC-T-CAGAATCTTTTCTTTACCCTACTT-T
326 TCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGA-AATCTTTTCTTTGCCCTA-TTAT
* * ** * **
1257729 CCTTAAAATCAATGTTCATCCCTT-AACTAAGACAAGCATCGACTCTTGTAATAGTCTCCGCTCT
389 CCTTAAAATCAAAGTTCATCCCTTGAA-TAAGACAAGCATCGATTCTCATAACAGTCTCCATTCT
*
1257793 TTTCAAGATTGGGAAGCCAAAACAC
453 TTTCAAGATTGGGAAGACAAAACAC
* ** *
1257818 ATTCCCTTTATTAGGATACATGACATTGATGCTTT
1 ATTGCCTTCGTTAGGATACACGACATTGATGCTTT
1257853 TGTTTGAATT
Statistics
Matches: 4600, Mismatches: 870, Indels: 578
0.76 0.14 0.10
Matches are distributed among these distances:
449 3 0.00
450 6 0.00
451 100 0.02
452 55 0.01
453 22 0.00
454 50 0.01
455 4 0.00
456 5 0.00
457 4 0.00
458 34 0.01
459 36 0.01
460 5 0.00
461 1 0.00
464 1 0.00
465 1 0.00
466 1 0.00
467 35 0.01
468 68 0.01
469 53 0.01
470 337 0.07
471 266 0.06
472 7 0.00
473 36 0.01
474 44 0.01
475 468 0.10
476 1594 0.35
477 62 0.01
478 198 0.04
479 6 0.00
481 3 0.00
482 2 0.00
483 1 0.00
485 32 0.01
486 87 0.02
487 87 0.02
488 26 0.01
489 167 0.04
490 10 0.00
491 154 0.03
492 191 0.04
493 31 0.01
494 209 0.05
495 41 0.01
496 4 0.00
500 1 0.00
501 2 0.00
503 1 0.00
505 3 0.00
508 1 0.00
509 2 0.00
511 43 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (477 bp):
ATTGCCTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTTTGCC
ATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCACACTAATCCCCA
TTCTTTTTTAGGATTAAGCACCATAAACACAGTCTTCTCACTAGGATACACGATATTGATGCTTT
GGTTTCACAACAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCTTCAAATGAG
ACAAACATAAATTCTAGTAATGATCTTCATTCATTTTGTGATAAGGCACTATAAACACATTCTCC
TCATTAAGATAAACGACATTGATGATTTTTTTTTACATGGAAATCTTTTCTTTGCCCTATTATCC
TTAAAATCAAAGTTCATCCCTTGAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTT
CAAGATTGGGAAGACAAAACAC
Found at i:1253814 original size:178 final size:178
Alignment explanation
Indices: 1253476--1253814 Score: 373
Period size: 178 Copynumber: 1.9 Consensus size: 178
1253466 TCACCCTTTG
*
1253476 AATAAGACAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAAGACAAAACACA
1 AATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAAGACAAAACACA
* * * * * * ***
1253541 TTGCCATCGTTAGGATACATGGCATTGATGCTTTGGTGTCGCAGGAAAAGCTTTTCTTTTTGTCA
66 TTGCCATCATTAAGATACATGACAATGATGCTTTGGGGTCGCAGGAAAAGATTTTCTTTTCCACA
* * * ***
1253606 TTTTTGATAGATTCTTTTCTTTGCCTTAAAATCAATGTTCATCTCTTA
131 GTTTTGATAAAATCTAAACTTTGCCTTAAAATCAATGTTCATCTCTTA
* * * **
1253654 AATAAGATAAGCATCGATTCTTATAATAGTCTCCATTCTTTTCAAGATTGGGAAG-CTGGAACAC
1 AATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAAGAC-AAAACAC
* *
1253718 ATT-CCATTTATTAAGATACATGACAATGATGCTTTGGGGTCG-TGAGAAAAGATTTTC-TTTCC
65 ATTGCCA-TCATTAAGATACATGACAATGATGCTTTGGGGTCGCAG-GAAAAGATTTTCTTTTCC
* *
1253780 ACCGTTTTGATAAAATC-AAAGTTTGTCTCTTAAAA
128 ACAGTTTTGATAAAATCTAAACTTTG-C-CTTAAAA
1253815 AAGACAAACA
Statistics
Matches: 131, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
176 4 0.03
177 21 0.16
178 106 0.81
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (178 bp):
AATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAAGACAAAACACA
TTGCCATCATTAAGATACATGACAATGATGCTTTGGGGTCGCAGGAAAAGATTTTCTTTTCCACA
GTTTTGATAAAATCTAAACTTTGCCTTAAAATCAATGTTCATCTCTTA
Found at i:1257085 original size:159 final size:160
Alignment explanation
Indices: 1256405--1257586 Score: 563
Period size: 159 Copynumber: 7.5 Consensus size: 160
1256395 TTCCCTTTAT
* ** *** * ***
1256405 ATTAGGATACATGAGATTGATGCTTTGGTGCCGTGAGAAAAGCTTTTCTTTACA-TTGTTTTTGA
1 ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTGA
* * * * *
1256469 TAAAATCAATGTTTGTCTCTTAAATAAGACAAACATTAATACTCACACTAATC-CCATTTCTTTT
66 TAAAATCAAAGTTTATCTCTTAAATAAGACAAACATGAATTCTTACACTAATCTCCA-TTC-TTT
* *
1256533 TAAGG-TTAGGCACCATAAACAAAGTCTTCTC
129 TCAGGATTAGGCACCATAAACACAGTCTTCTC
* * ** * * * * *
1256564 ATTAGGGTGCACAATATTAATGCTTTGGTTTCGCAGGAAAGGC-TTTCTTCCCACCAATTTTTG-
1 ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTGA
* * ** * * * *
1256627 TAAAGTCTAAGTTCGTGC-CTCAAATAAGACAAACATGGATTCTAGTA-A--AGATCTTCATTTT
66 TAAAATCAAAGTTTAT-CTCTTAAATAAGACAAACATGAATTCT--TACACTA-ATCTCCA-TTC
* * * * * *
1256688 TTTTC-TGATTAGCCACTATAAACACATTCTCCTT
126 TTTTCAGGATTAGGCACCATAAACACAGTCTTCTC
* * ** * * * * * ** **
1256722 ATTAGG-GACAATGATATTGATGATTTTCTTTTATATGGAAATCTTTTCTTTCC-CTTATTTTCC
1 ATTAGGATAC-ATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTG
* * * * * *
1256785 TTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCAATTCTCGTA-AC-AGTCTCCATTCTT
65 ATAAAATCAAAGTTTATCTCTTAAATAAGACAAACATGAATTCT--TACACTAATCTCCATTCTT
* * * *
1256848 TTCAAGATT-GTGAACCAAAAACACA-TAC-CCTAC
128 TTCAGGATTAG-GCACCATAAACACAGT-CTTCT-C
* * * **
1256881 AATAGGATACATGACATTGATGCTTTGGTGTCACGTGAAAAGCTTTTCTTTCCACC-ATTTTTGA
1 ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTGA
* * *
1256945 TAGAATCAAAGTTTATCTCTTAAATAAGACAAACATGAATACTTACACTAATCCCCATTCTTTTC
66 TAAAATCAAAGTTTATCTCTTAAATAAGACAAACATGAATTCTTACACTAATCTCCATTCTTTTC
1257010 AGGATTAGGCACCATAAACACAGTCTTCTC
131 AGGATTAGGCACCATAAACACAGTCTTCTC
* * * * *
1257040 ATAAGGATACATGATATTGATGCTTTGGTTTCGCAACAAAGGC-TTTCTTCCCACCAATTTTTGA
1 ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTGA
* ** * ** * * * *
1257104 -AAAGTCTGAGTTTGTAACTC-T-AATGGGACAAACTTGAATTC-TAGCAATGATCTTCATTCTT
66 TAAAATCAAAG-TT-TATCTCTTAAATAAGACAAACATGAATTCTTA-CACTAATCTCCATTCTT
* * * *
1257165 TT-TGTGATTAGTCACTATAAACACATTCTTCTC
128 TTCAG-GATTAGGCACCATAAACACAGTCTTCTC
* * *** * ** ** * * * * **
1257198 ATTCGGATAAATGATGCAGCTAATTTTCTTTTACATGAAAATCTTTTCTTT--ACCTTATTTTCC
1 ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACC-AATTTTTG
* * * * ** * * * *
1257261 TTAAAATCAAAGTTCATCCCTTAAAAAAGACAGGCATCG-ATTCTCATAGC-AGTCTCCATTTTT
65 ATAAAATCAAAGTTTATCTCTTAAATAAGACAAACAT-GAATTCTTACA-CTAATCTCCATTCTT
* * *
1257324 TTCAAGATT-GCGAAGCCA-AAACACAATCCCTT-T-
128 TTCAGGATTAG-GCA-CCATAAACACAGT--CTTCTC
* * * * * *
1257357 ATTAAGATACAAGACATTGATGCTTTGGTGTCACAAGAAAAGCCTTT-TTTCCAAC-ATTTTTGA
1 ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTGA
* * * ** * * * *
1257420 TAGAATCAAAGTTTATCTCTTAAATAA-A-ATAC--GAATACTCGCACTAATCACCGTTGTTTTT
66 TAAAATCAAAGTTTATCTCTTAAATAAGACAAACATGAATTCTTACACTAATCTCCATTCTTTTC
*** *
1257481 AGGATTAGGCACCATAAATGTAGTCTTCTG
131 AGGATTAGGCACCATAAACACAGTCTTCTC
** * * *
1257511 ATTAGGATACATGATATTGATGCTTTGGTTTTGCAACAAAGGC-TTTCTTCCCACCAATTTTTG-
1 ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTGA
* *
1257574 TAAAGTCCAAGTT
66 TAAAATCAAAGTT
1257587 CGTGCCTCAA
Statistics
Matches: 742, Mismatches: 230, Indels: 107
0.69 0.21 0.10
Matches are distributed among these distances:
152 3 0.00
153 9 0.01
154 80 0.11
155 8 0.01
156 2 0.00
157 15 0.02
158 254 0.34
159 347 0.47
160 21 0.03
161 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (160 bp):
ATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAATTTTTGA
TAAAATCAAAGTTTATCTCTTAAATAAGACAAACATGAATTCTTACACTAATCTCCATTCTTTTC
AGGATTAGGCACCATAAACACAGTCTTCTC
Found at i:1258773 original size:475 final size:476
Alignment explanation
Indices: 1257877--1265168 Score: 4047
Period size: 476 Copynumber: 15.5 Consensus size: 476
1257867 TTTATCACCA
* * * * *
1257877 AAATAAAATAAACATTAATACTCATACTAATCCCCATTCTTTTCAGAATTAGGCACCATAAACAT
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* * * * * * * * * * *
1257942 AGTCTGCACATTATGATTCACAATATTAATGCTTTGGTTTCGCAAGAAAGGCATTCTTTCGACTA
66 AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
* * *
1258007 ATTTTTGTAAAGTCTAAGTTCGT-CTCTCAAATGAGACAAACACGGATTCTAGTAATGATATTCA
131 ATTTTTGTAAAGTCTAAGTTCATGC-CTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCA
* * * * *
1258071 TACCTTTTGTGATTA-GCTACTGTACACACATTCTACTCATTAGG----AT-A-A---TT-A-TT
195 TTCTTTTTGTGATTAGGC-ACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTT
* * *
1258124 TCTTTTGCACGAAAACATTTTCTTTGCCTTATTTTCCTTAAAATCAAAGTTCT-TCCCATA-AAA
259 TCTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTT-TATCCC-TAGAAT
* * * * *
1258187 AAGATAGGCATCTATTCTCGTAATAGTCT-TCATTCTTTTCAAGATTGGGAA-CCAAAAACACA-
322 AAGACAAGCATCGATTCTCATAACAGTCTCT-ATTCTTTTCAAGATTGGGAAGCC-AAAACACAT
* * * * * *
1258249 TACTTTGCATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTTCCTTCCACCA
385 TGCCTT-CATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATTCCACCA
* *
1258314 TTTTTGATAGAATCAAAGTTTATCCCTT
449 TTTTTGATAGAATCAAAGTTTGTCTCTT
* *
1258342 AAATAAGGCAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCCCCATAAACAT
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* * * **
1258407 GGTTTTCTTATTAGG-TACATAATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
66 AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
* * * * * * *
1258471 ATTCTTGTAAAGTCTAAGTTTATGCCTCTAATGATATAAAAATGAATTCTAGTAATGATCTTCAT
131 ATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCAT
* * * * **
1258536 TCTTTTTGGGATTAGGCACTATAAACGCATTTTCCTTATTAGGATAAATGATGTTGTTGATTTTC
196 TCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTTTC
* *
1258601 TTTTGCACGAAAATATTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTTAACCCTAGAATAAGA
261 TTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCCTAGAATAAGA
* * *
1258666 CAAGTATCGATTCTCATAGCAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAACACATTGGCTT
326 CAAGCATCGATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAACACATTGCCTT
* * *
1258731 CATTAGGATACACGACATTGATGCTTTGGTGTCTTAAGAAAAGCTTTT-GTTCCCACCGTTTTTG
391 CATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATT-CCACCATTTTTG
*
1258795 ATAGAATCAAAGCTTGTCTCTT
455 ATAGAATCAAAGTTTGTCTCTT
* * * * *
1258817 AAATAAGAAAAACATGAAAACTCACACTAATCCTCATTCCTTTCAGGATTAGGCACCGTAAACAT
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* * * * * ****
1258882 AGTCTTCTCATTAGGATTCATGATATTGATGCTTTGATTTTGCCACCAAAGGCTTTCTTTTTTCC
66 AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCG-CAACAAAGGCTTTCTTCCCACC
* ** * * * *
1258947 AATTTTTGTAAATTCTAA-TTTTTCCCCTCATATGAGATAAACATAGATTCTAGTAATGATCTTC
130 AATTTTTGTAAAGTCTAAGTTCAT-GCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTC
* * * * * *
1259011 TTTCTTTTTATGATAAGGCAC-ATAAACAGATTCTCCGCATTAGGATAAATGACATTCTTGATTT
194 ATTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTT
* * * * * *
1259075 TCTTTTGCATGAAAAT-CTTTCTTTGCCCAATTAT-CTTAAAAATCGAAA-CTTATCCCTTGAAT
259 TCTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTT-AAAATC-AAAGTTTATCCCTAGAAT
* * ** * * * *
1259137 AAGAGAAGCATCAATTCTTGTAAAAGTGTCCATTCTTTTCAAGATTGGGAAGCTAAAACACATTG
322 AAGACAAGCATCGATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAACACATTG
** * * ** **
1259202 CCACCATTAGGATACACGACATTGATGCTTGGGTGTCTTAAGAAAAGCTTTTCAACCCACTTTTT
387 CCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATTCCACCATTT
1259267 TTGATAGAATCAAAGTTTGTCTCTT
452 TTGATAGAATCAAAGTTTGTCTCTT
* * * *
1259292 AAATAAGCCAAACATGAACACT--CA-TAATCTCGATTCTTTT-AGGATTAGGCACCATAAACAT
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* * **
1259353 AGTCTTCTCATTAGGATGCACGATTTTGATGCTTTGGTTTCGCAACAAATTCTTTCTTCCCACCA
66 AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
* * * * * *
1259418 ATTGTTGTAAAGTCTAAGTTCGTGCCTCAGATGAGACAAATATGGATTTTGGTAATGATCTTCAT
131 ATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCAT
* * * * *
1259483 TCTTTTTGTGATAAGGCACTATAAACATAATCTCCTCAATAGGATAAATGACATTGATGATTTTC
196 TCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTTTC
* * * *
1259548 TTTTACACGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTGAATAAGA
261 TTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCCTAGAATAAGA
* * *
1259613 TAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTAGGAAGCCAAAATC-CATTGCCT
326 CAAGCATCGATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAA-CACATTGCCT
* * * * *
1259677 TCATTAGGATACACAACATTGGTGCTTTGGTGTCGCAAGAAAAGCTTTTC-TTCCTGCCCTTTTT
390 TCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATTCC-ACCATTTTT
1259741 GATAGAATCAAAGTTTGTCTCTT
454 GATAGAATCAAAGTTTGTCTCTT
*
1259764 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTTAGGATTAGGCACCATAAACAT
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* * * * **
1259829 AGTCTTCTCATTTGCATACACGATATTGATGCTTTGGTTTTGTAACAAAGGCTTTCTTCCCATAA
66 AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
* * *
1259894 ATTGTTGTAAAGTCTAAGTTCATG-CTGCAAATGAGATAAACATGTATTCTAGTAATGATCTTCA
131 ATTTTTGTAAAGTCTAAGTTCATGCCT-CAAATGAGACAAACATGGATTCTAGTAATGATCTTCA
* ** * * * * ***
1259958 TTCATTTTGCAATTTGGCACAATAAACACATTCTCCTCCTTAGGATAAATGATATTGACAATTTT
195 TTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGA-TTT
* * * * * * * * **
1260023 TTTTTTGCATGGAAATCTTTTCTTTGTCTTATTTTCTTTAAAATCAAAATCCATCCCTTA-AATA
259 TCTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCC-TAGAATA
* * * *
1260087 AGACAAGCATCGATTCTCATAACGGTCTCTATTCTTTTCAAGATTGGAAAGCTAAAACACAAT-C
323 AGACAAGCATCGATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAACACATTGC
* * * * * * * * *
1260151 CTTTCATTAAGATACATGACATTGTTACTTTTGCGTAGTAAGAGAAGCTTTTCATTCCACTATTT
388 C-TTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATTCCACCA-TT
*
1260216 TTTTATAGAATCAAAGTTTGTCTCTT
451 TTTGATAGAATCAAAGTTTGTCTCTT
* * *
1260242 CAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAATGA
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAA-CA
* * * *** * * *
1260307 -AGTCTTCTGATTAGGATACATGATATTAACATTTTGGTTTTGCAAGAAAGGCATT-TTCCCACC
65 TAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACC
* * *
1260370 AATTTTTGTAAAGTCTAAGTACATGCCTCAAATGCGACAAACATGGATTCTACTAATGATCTTCA
130 AATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCA
* * ** * ** * *
1260435 TTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATACACAATATTAATGCTTTG
195 TTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTTT
* * ** * * * * * * *
1260500 GTTTTGCA--ACAA-A--GGC--TCCACCAATTTT--TGTAAAGTCTAAGTTCGAGCCTTA-AAT
260 CTTTTGCACGAAAATATTTTCTTTGC-CCTATTTTCCT-TAAAATCAAAGTT-TATCCCTAGAAT
* ** * ** ** * *
1260555 AAG---A-CATGGATTCT-AGGGA-TGATCT-TCATTCTTTTTGTA-ATAAGGCA-CTATAAACA
322 AAGACAAGCATCGATTCTCA-TAACAG-TCTCT-ATTC-TTTTCAAGATTGGGAAGCCA-AAACA
* * * * ** * * * * * * * * *
1260611 CAATCT-CC-GCATTAGGATAAATGACATTGATGATTTTCTTTTGCATGGAAATCTTTGCCCTGC
382 C-AT-TGCCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTT-TCATTC
* * *** * * ** *
1260674 C-CAATTATCCTTAAAATTAAAGTTCATCCCTT
444 CACCATTTTTGATAGAATCAAAGTTTGTCTCTT
* * * * ** * * *
1260706 GAATAAGACAAGCATCAATTCTCGTTAC-AATCACCATTCTATTT-ATGATT-GAGAAGCCA-AA
1 AAATAAGACAAACATGAATACTC-ACACTAATCCCCATTCT-TTTCAGGATTAG-GCA-CCATAA
* * * * * ** * *
1260767 ACACACTC-TCTTCGTTAGGATATACGACAAGGATGCTTTGGTGTT-GCAAGAAAAGCTTTTCTT
62 ACATAGTCTTC-TCATTAGGATACACGATATTGATGCTTTGGT-TTCGCAACAAAGGC-TTTCTT
* * * * * * *
1260830 CCTACC-ATTTTTGATAGAA-TCAAAGTT--TGTCTCTCAAATAATACAAACATGAATACTCA-C
124 CCCACCAATTTTTG-TA-AAGTCTAAGTTCATG-C-CTCAAATGAGACAAACATGGATTCT-AGT
* * ** * * * * * * * *
1260890 ACTAATCCCCATTCTTTTCAG-GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGAT
184 AATGATCTTCATTCTTTT-TGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGAC
* * ** ** * * * * *
1260954 ATTGATGCTTTGGTTTTGCAAC-AAAA-GCTTTC-TTCCCACAAATTGTT--GTAAAGTCTAAGT
248 ATTGTTGATTTTCTTTTGC-ACGAAAATATTTTCTTTGCC-C-TATT-TTCCTTAAAATCAAAGT
** * * * * * * * *
1261014 TCGTGCCTCA-AATCAGACAAACATGGATTCT-AGTAA-TGATCTTTA-TC----CGA-ATTGTG
309 TTATCCCT-AGAATAAGACAAGCATCGATTCTCA-TAACAG-TCTCTATTCTTTTCAAGATTGGG
** *** * * ** **
1261070 -A--TTAGGGACATT--C-TC--T----T---CG---TTGACGCCTTGGTACCGTAAGTTAAGCT
371 AAGCCAAAACACATTGCCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCT
** *
1261117 TTTTTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTT
436 TTTCATTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTT
* * * * * *
1261158 AAATATGATAAACATTAATACTCATACTAATCCCCATTCATTTCAGGATTAGGCACCATAAATGA
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAA-CA
* * * **
1261223 -AGTCTTCTCATTAGGATACAGGATATTGATACTTTGGTTTCACAACAAAGGCTTTCTTCCCATG
65 TAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACC
* * *
1261287 AATTGTTGTAAAGTTTAAGTTCGTGCCTCAAATGAGACAAAC-TCGGATTCTAGTAATGATCTTC
130 AATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACAT-GGATTCTAGTAATGATCTTC
* * *
1261351 ATTCTTTTTGTGA-AAGGCACTATAAACACATTCTCCTCATTAAGATAAATGACATTGATGATTT
194 ATTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTT
** * * * * * *
1261415 TCTTTTGCATTAAAATCTTTTCTTTGCCCAATTATCCTTAAAATGAAAGTTCATCTCGT-GAATA
259 TCTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATC-CCTAGAATA
** * * *
1261479 AGACAAGCATTAATTCTCGTAACAGTCTCAACTCTTTTCAAGATTGGGAAGCCAAAACACATTGC
323 AGACAAGCATCGATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAACACATTGC
** *
1261544 CTTTGTTAGGAT-----ACA-T--TGC--------C-----AAAA------C---CCATCATTTT
388 CTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATTCCACCATTTT
* ** *
1261579 CGATAGAATCAAAACTTATCTCTT
453 TGATAGAATCAAAGTTTGTCTCTT
* * * * *
1261603 AAATGAGAAAAATATGAATACTCATACTAATCCCCATGCTTTTCAGGATTAGGCACCATAAACAT
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* * * * * *
1261668 GGTCTTCTTATTAGGATACATGATATTGATGCTTTAGTTTCGCAAGAAAGGCTTTCTTCTCACCA
66 AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
* * * * * * * ** *
1261733 ATTGTTGCAAAGTCTAAGTTCGTGCTTTAAATGAGACAAATATGGATGCTAACAATAATCTTCAT
131 ATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCAT
* * * *
1261798 TCTTTTTGTGATAAGGTACTATAAACACATTCTCCTCATTAGGATAAA-CAGCATTGATGATTTT
196 TCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGA-CATTGTTGATTTT
* * * * * * * *
1261862 TTTTTGCATGGAAATCTTTTCTTTGCCCTATTTT-CTTAAAATCAAAGTTCATCCTTTGAATATG
260 CTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCCTAGAATAAG
* * * *
1261926 ATAAGCATCGATTGTCAAAACAGTCTCCATTCTTTTCAAGATTGGGAAGCCAAAACACATTGCCT
325 ACAAGCATCGATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAACACATTGCCT
* * * * * ** ** *
1261991 CCGTTAGGAAAAATGACATTGATGCTTTGGTG-CACAAGAAAAGCTTTT-ATTTCTGCCATTTTC
390 TCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCA-TTCCACCATTTTT
*
1262054 GATAGAATCAAAGTCTGTCTCTT
454 GATAGAATCAAAGTTTGTCTCTT
* * * ** * *
1262077 AAATAAGATAAACATAAATACTCACCCTAATCCTTATTCTTATCAGGATTAGGCACCATAAACAC
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* * * * * * * *
1262142 ATTCTTTTCATTAGGATACACAATATTGATGCTTTGGTTTCGTAACAAAAGATTTCTTCCGATCA
66 AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
* * * * * * *
1262207 ATTTTTGTGAAGTCTAAGTACGTGCCTCAAATGAGACAAACATGAATTCTGGAAAAT-ATGTTCA
131 ATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAG-TAATGATCTTCA
* * * * * * *
1262271 TTCTGTTTGTCATAAGGCACTACAAACACATTCTTCTCATTAGGATAAACGACATTGATGATTTT
195 TTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTTT
* * * * * *
1262336 CTTTTGCATGTAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCACATA-TATAA
260 CTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATC-CCTAGAATAA
* * *
1262400 GACAAGCA-CTGATTCTCCTAACAGTCTCCATTCTTTTCAAGATTGGGAA-CCAATAACATATAT
324 GACAAGCATC-GATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAA-AACACAT-T
* *
1262463 G-CTTCATTAGGGTACACGACATTGATGCTTTGGTGTC-TCAAGAAAAGCTTTTC-TTCCCACCG
386 GCCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGT-AAGAAAAGCTTTTCATT-CCACCA
* *
1262525 TTTTTGATAGAATCAAAGCTTGTCTCTC
449 TTTTTGATAGAATCAAAGTTTGTCTCTT
* * * * *
1262553 AAATAAGTCAAACATGAATACTCATACTAATCCCCATTCCTTTCAAGATTAGGCACCATAAACAA
1 AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
* *
1262618 AGTCTTCTCATTAGCG-TACACGATATTGATGCTTTGGTTTTGCAACAAAGGCTTTTTTCCCACC
66 AGTCTTCTCATTAG-GATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACC
* * *
1262682 AATTGTTGTCAAGTCTAAGTTCATGCCTCAAATGAGGCAAACATGGATTCTAGTAATGATCTTCA
130 AATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCA
* * * * * *
1262747 TTCTTTTTGTGATAAGGCGCTATAAACAAATTATCCTCATTACGATAAATGACATTGATGATTTT
195 TTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTTT
* ** * * * * * ** *
1262812 CTTTGGTTTCGCAACAA-AGGCTTTC-TTCCCACTAATTGTT--GTAAAGTCTAAGTTCGTACCT
260 CTTTTG-CACG-AA-AATA--TTTTCTTTGCC-CT-ATT-TTCCTTAAAATCAAAGTTTATCCCT
* * ** * * *** * * *
1262873 CA-AATGAGGCAAATATGGATTCT-AGTAA-TGATCT-TCATTCTTTTTGTGATTTGGCA-CTAT
317 -AGAATAAGACAAGCATCGATTCTCA-TAACAG-TCTCT-ATTCTTTTCAAGATTGGGAAGCCA-
* * * * * * *
1262933 AAAAACATTTTCCTT-TTTAGGATACATGATATTAATGCTTTGGTTTCGT-----AA-C-TTTC-
377 AAACACA-TTGCCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCA
* * * * *
1262989 TTCCAACCAATTGT-AGTA-AAGTCTAAGTTCGTGC-CTC
441 TTCC-ACCATTTTTGA-TAGAA-TCAAAGTTTGT-CTCTT
* * * * * * *** * * *
1263026 AAATGAGACAAATATGGATTCT-ACTAATTATTTTCGTTC-TTT-ATGTGATTTGGCACTATAAA
1 AAATAAGACAAACATGAATACTCAC-ACTAATCCCCATTCTTTTCA-G-GATTAGGCACCATAAA
* * * * * * * *
1263088 AACA-TTTTCCTCTTTAGGATACATGATATTAATGCTTTGGTTTTGTAACAAAGGCTTTCTTCCC
63 CATAGTCTT-CTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCC
* * * ** * * * * *
1263152 ATCAATTGTTGTAAAGTATAAGTTTGTGCCTCAAATGAGACCAATATGGATTCTACTAGTGATTT
127 ACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCT
* * * * * * * * ** *
1263217 TCATTCTTTTTGTGATTTGGCACTATAAAAAGATTTTACTCTTTAGGATACATGATATTAATGCT
192 TCATTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGAT
** * * *** ** * * * * * *
1263282 TTGGTTTGGTA--ACAAAGGCTTTCTTCCCCCCAATTGTT--GTAAAGTCTAAGTTCGTGTCTC-
257 TTTCTTTTGCACGA-AAATATTTTCTT-TGCCCTATT-TTCCTTAAAATCAAAGTT--TATCCCT
* *** * ** *** ** * *
1263342 A-AATGAGACAAATGTGGATTCT-AGT-ATTGATCATC-ATTCTTTTTGTGATAAGGCA-CTATA
317 AGAATAAGACAAGCATCGATTCTCA-TAACAG-TC-TCTATTCTTTTCAAGATTGGGAAGCCA-A
** * * * * * * * *
1263402 AACACATT-CTCCGCATTAGGATATATGATATTAATGCTTTGGTTTCGCAACAAAGGC-TTTC-T
378 AACACATTGC-CTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCAT
* * *
1263464 TCCCACCGATTGTTG-TA-AAGTCTAAGTTTGT-TCCTC
442 T-CCACC-ATTTTTGATAGAA-TCAAAGTTTGTCT-CTT
* * * * * ** * * *
1263500 AAATGAGACAAATATGGATTCT-AGTAAC-AATCTTCATTCTTTT-TGTGA-TATGGCACTATGA
1 AAATAAGACAAACATGAATACTCA--CACTAATCCCCATTCTTTTCAG-GATTA-GGCACCATAA
* * * *** * * * ** ** **
1263561 ACACATTC-TCTGCGTTAGGATATTTGACATTGACGTTTTTCTATT-GCATGAAAACCTTTTCTT
62 ACATAGTCTTCT-CATTAGGATACACGATATTGATGCTTTGGT-TTCGCAACAAAGGC-TTTCTT
** * ** * ** * * * *
1263624 TGC-CCAATTATCCTCG-AAA-TGAAAGTTCATCCCTTGAATAAGACAAGCCT-CACTTCT-GAT
124 CCCACCAATT-T--TTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGA-TTCTAG-T
* * * * *** * * * ** * ***
1263684 AGT-AGTCTCCACTCCTTTCAAGATTGGGAAGCCA-AAACAC-TT-TGCCTTTGTTCGGATAGCC
184 AATGA-TCTTCATTCTTTTTGTGATTAGGCA-CTATAAACACATTCT-CC-TCATTAGGATAAAT
* * * * * * * * *
1263745 GACATTGATGCTTTGCTTTTGAATGGAAATCTTTTCTTTGCCCAATTATCCTTAAAATCAAAGTT
245 GACATTGTTGATTTTCTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTT
* * * * * * *
1263810 CATCCCCT-GAATAAGACAAGGATTGATTCTCCTAACAGGCTCCATT-TTTTCCAAGGTTGGGAA
310 TAT-CCCTAGAATAAGACAAGCATCGATTCTCATAACAGTCTCTATTCTTTT-CAAGATTGGGAA
* * * *
1263873 GCCAAAACATATTGCTTTCGTTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTT
373 GCCAAAACACATTGCCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTT
* * *
1263938 TC-TTCCCGCCGTTTTTGATAGAATCAAAGGTTT-TCTCCT
438 TCATT-CCACCATTTTTGATAGAATCAAA-GTTTGTCTCTT
* * ** * *
1263977 AAATAAGA-AAGACGTGAATACTCAAACTAATCCCCATTCTTTTTGGGGTTAGGCATCATAAACA
1 AAATAAGACAA-ACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACA
* * * *
1264041 TAGTCTTCTCGTTAAGATACATGATATTGAAGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACC
65 TAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACC
* * * *
1264106 AATTTTTGTAAAGTCTAAGGTCCTGCCTCAAATGCGACAAACATGGATTCTACTAATGA-CTTTC
130 AATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATC-TTC
* * * * * ** *
1264170 ATTCTTTTTGTGATTTGGCAATATAAACACATTTTCCTCATTAGGATATATGATATTAATGCTTT
194 ATTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTT
* * *** ** * * * * ** * *
1264235 GCTTTCGCA--ACAAAGGCTTTCTTCCCACCGATTGTT--GTAAAGTCTTAAGTTCGTGCCTAAA
259 TCTTTTGCACGA-AAATATTTTCTTTGC-CCTATT-TTCCTTAAAATC-AAAGTTTATCCCTAGA
* *** * ** *** ** * *
1264296 ATGAGACAAATGTGGATTCT-AGT-ATTGATCATC-ATTCTTTTTGTGATAAGGCA-CTATAAAC
320 ATAAGACAAGCATCGATTCTCA-TAACAG-TC-TCTATTCTTTTCAAGATTGGGAAGCCA-AAAC
** * * * * * * * *
1264357 ACATT-CTCCGCATTAGGATATATGATATTAATGCTTTGGTTTCGCAACAAAGGC-TTTC-TTCC
381 ACATTGC-CTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATT-C
* * *
1264419 CACCGATTGTTG-TA-AAGTCTAAGTTTGT-TCCTC
444 CACC-ATTTTTGATAGAA-TCAAAGTTTGTCT-CTT
* * * * * ** * * *
1264452 AAATGAGACAAATATGGATTCT-AGTAAC-AATCTTCATTCTTTT-TGTGA-TATGGCACTATGA
1 AAATAAGACAAACATGAATACTCA--CACTAATCCCCATTCTTTTCAG-GATTA-GGCACCATAA
* * * * * * * ** ** **
1264513 ACACATTC-TCTGCGTTAGGATA-ATTGACATTGACGTTTTTCTATT-GCATGAAATCCTTTTCT
62 ACATAGTCTTCT-CATTAGGATACA-CGATATTGATGCTTTGGT-TTCGCAACAAAGGC-TTTCT
** * ** * ** * ** * * * *
1264575 TTGC-CCAATTATCCTCAAAATGAAAGTTCATCCCTTGAATAAGACAAGCCT-CACTTCT-GATA
123 TCCCACCAATTTTTGT-AAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGA-TTCTAG-TA
* * * *** * * * ** * ***
1264637 AT-AGTCTCCACTCCTTTCAAGATTGGGAAGCCA-AAACAC-TT-TGCCTTTGTTCGGATAGCCG
185 ATGA-TCTTCATTCTTTTTGTGATTAGGCA-CTATAAACACATTCT-CC-TCATTAGGATAAATG
* * * * * * * * * *
1264698 ACATTGATGCTTTGCTTTTGAATGGAAATCTTTTCTTTGCCCAATTATCCTTAAAATCAAAGTTC
246 ACATTGTTGATTTTCTTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTT
* * * * * *
1264763 ATCCCCT-GAATAAGACAAGGATCGATTCTCCTAACAGGCTCCATT-TCTTCCAAGGTTGGGAAG
311 AT-CCCTAGAATAAGACAAGCATCGATTCTCATAACAGTCTCTATTCT-TTTCAAGATTGGGAAG
* * * **
1264826 CCAAAACATATTGCTTTCGTTAGGATACACGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTT
374 CCAAAACACATTGCCTTCATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTT
* *
1264891 C-TTCCCACCGTTTTTGATAGAATCAAAGGTTT-TCTCCT
439 CATT-CCACCATTTTTGATAGAATCAAA-GTTTGTCTCTT
* * *
1264929 AAATAAGA-AAGACGTGAATACTCACACTAATCCCCATTCTTTTTAGGGTTAGGCACCATAAACA
1 AAATAAGACAA-ACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACA
* * * *
1264993 TAGTCTTCTCGTTAAGATACATGATATTGAAGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACC
65 TAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACC
* * * *
1265058 AATTTTTGTAAAGTCTAAGGTCCTGCCTCAAATGCGACAAACATGGATTCTACTAATGA-CTTTC
130 AATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATC-TTC
* *
1265122 ATTCTTTTTGTGATTTGGCACTATAAACACATTTTCCTCATTAGGAT
194 ATTCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGAT
1265169 CTATGATATT
Statistics
Matches: 5269, Mismatches: 1216, Indels: 673
0.74 0.17 0.09
Matches are distributed among these distances:
444 3 0.00
445 292 0.06
446 77 0.01
449 2 0.00
450 63 0.01
451 108 0.02
452 125 0.02
453 9 0.00
454 2 0.00
455 1 0.00
456 2 0.00
457 5 0.00
458 2 0.00
459 1 0.00
460 7 0.00
462 2 0.00
463 5 0.00
464 227 0.04
465 159 0.03
466 118 0.02
467 17 0.00
468 119 0.02
469 28 0.01
470 105 0.02
471 124 0.02
472 232 0.04
473 242 0.05
474 422 0.08
475 808 0.15
476 1090 0.21
477 594 0.11
478 169 0.03
479 10 0.00
480 88 0.02
481 9 0.00
482 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (476 bp):
AAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAT
AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCA
ATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCAT
TCTTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGACATTGTTGATTTTC
TTTTGCACGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCCTAGAATAAGA
CAAGCATCGATTCTCATAACAGTCTCTATTCTTTTCAAGATTGGGAAGCCAAAACACATTGCCTT
CATTAGGATACACGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCATTCCACCATTTTTGA
TAGAATCAAAGTTTGTCTCTT
Found at i:1259840 original size:159 final size:159
Alignment explanation
Indices: 1258256--1259866 Score: 462
Period size: 159 Copynumber: 10.2 Consensus size: 159
1258246 ACATACTTTG
* * *
1258256 CATTAGGATACATGACATTGATGCTTTAGTGTCGCAAGAAAAGCTTTTCCTT-CCACCATTTTTG
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTT-CTTCCCACCCTTTTTG
** * * *
1258320 ATAGAATCAAAGTTTATCCCTTAAATAAGGCAAACATGAATACTCACACTAATCCCCATTCTTTT
65 ATAGAATCAAAGTTCGTCTCTTAAATAAGACAAACATGAATACTCACACTAATCTCCATTCTTTT
* * * *
1258385 CAGGATTAGGCCCCATAAACATGGTTTTCT
130 TAGGATTAGGCACCATAAACATAGTCTTCT
* ** * * * * * *
1258415 TATTAGG-TACATAATATTGATGCTTTGGTTTCGCAACAAAGGC-TTTCTTCCCACCAATTCTTG
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACC-CTTTTTG
* ** * * * * * * * * *
1258478 -TA-AAGTCTAAGTTTATGC-CTCT-AATGATATAAAAATGAATTCT-AGTAATGATCTTCATTC
65 ATAGAA-TCAAAGTTCGT-CTCT-TAAATAAGACAAACATGAATACTCA-CACTAATCTCCATTC
* * ** *
1258538 TTTTTGGGATTAGGCACTATAAACGCA-TTTTCCT
126 TTTTTAGGATTAGGCACCATAAACATAGTCTT-CT
* * * ** * * ** * * * ** *
1258572 TATTAGGATAAATGATGTTGTTGATTTTCTTTTGCACGAAAATATTTTCTT--TACCCTATTTTC
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACCCT-TTTT-
** * *** * ** * * * *
1258635 CTTAAAATCAAAGTTTAAC-CCTAGAATAAGACAAGTATCG-ATTCTCATAGC-AGTCTCTATTC
64 GATAGAATCAAAGTTCGTCTCTTA-AATAAGACAAACAT-GAATACTCACA-CTAATCTCCATTC
* * * * * * *
1258697 TTTTCAAGATTGGGAAGCCAAAACACATTGGC-T-T
126 TTTTTAGGATTAGGCA-CCATAA-ACATAGTCTTCT
** * *
1258731 CATTAGGATACACGACATTGATGCTTTGGTGTCTTAAGAAAAGCTTTTGTTCCCACCGTTTTTGA
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACCCTTTTTGA
* * *
1258796 TAGAATCAAAGCTT-GTCTCTTAAATAAGAAAAACATGAAAACTCACACTAATC-CTCATTCCTT
66 TAGAATCAAAG-TTCGTCTCTTAAATAAGACAAACATGAATACTCACACTAATCTC-CATTCTTT
* *
1258859 TCAGGATTAGGCACCGTAAACATAGTCTTCT
129 TTAGGATTAGGCACCATAAACATAGTCTTCT
* * * * * * ** * * * *
1258890 CATTAGGATTCATGATATTGATGCTTTGATTTTGCCACCAAAGGCTTTCTTTTTTCCA--ATTTT
1 CATTAGGATACACGACATTGATGCTTTGGTGTCG-CAAGAAAAGC-TT-TTCTTCCCACCCTTTT
* ** * * * * * * * * * * *
1258953 TG-TA-AATTCTAA-TTTTTCCCCTCATATGAGATAAACAT-AGATTCT-AGTAATGATCTTCTT
63 TGATAGAA-TCAAAGTTCGT-CTCTTAAATAAGACAAACATGA-ATACTCA-CACTAATCTCCAT
* * * * * *
1259013 TCTTTTTATGATAAGGCA-CATAAACAGATTCTCCG
124 TCTTTTTAGGATTAGGCACCATAAACATAGTCTTCT
* * ** * ** * * * * *
1259048 CATTAGGATAAATGACATTCTTGATTTTCTTTTGCATGAAAATC-TTTCTTTGCCCA--ATTATC
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTC-TT-CCCACCCTT-T-
* * * * * * * * * *** * *
1259110 TT-A-AAAATCGAAACTT-ATCCCTTGAATAAGAGAAGCATCAATTCTTGTA-AAAGTGTCCATT
62 TTGATAGAATC-AAAGTTCGTCTCTTAAATAAGACAAACATGAATACTCACACTAA-TCTCCATT
* * * * * * * **
1259171 CTTTTCAAGATTGGGAAGC-TAAAACACATTGCCAC-
125 CTTTTTAGGATTAGGCACCAT-AAACATAGT-CTTCT
* ** ** **
1259206 CATTAGGATACACGACATTGATGCTTGGGTGTCTTAAGAAAAGCTTTTCAACCCACTTTTTTTGA
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACCCTTTTTGA
* * * *
1259271 TAGAATCAAAGTTTGTCTCTTAAATAAGCCAAACATGAACACT--CA-TAATCTCGATTC-TTTT
66 TAGAATCAAAGTTCGTCTCTTAAATAAGACAAACATGAATACTCACACTAATCTCCATTCTTTTT
1259332 AGGATTAGGCACCATAAACATAGTCTTCT
131 AGGATTAGGCACCATAAACATAGTCTTCT
* ** * * ** * *
1259361 CATTAGGATGCACGATTTTGATGCTTTGGTTTCGCAACAAATTC-TTTCTTCCCACCAATTGTTG
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACC-CTTTTTG
* * * * * * ** *** * * *
1259425 -TA-AAGTCTAAGTTCGTGC-CTCAGATGAGACAAATATGGATTTTGGTAATGATCTTCATTCTT
65 ATAGAA-TCAAAGTTCGT-CTCTTAAATAAGACAAACATGAATACTCACACTAATCTCCATTCTT
* * * *
1259487 TTT-GTGATAAGGCACTATAAACATAATCTCCT
128 TTTAG-GATTAGGCACCATAAACATAGTCTTCT
* * * * ** * ** * * **
1259519 CAATAGGATAAATGACATTGATGATTTTCTTTTACACGAAAATCTTTTCTT--TGCCCTATTTTC
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACCCT-TTTT-
** * * * * * * * * *
1259582 CTTAAAATCAAAGTTCATCCCTTGAATAAGATAAGCATCG-ATTCTCATAAC-AGTCTCCATTCT
64 GATAGAATCAAAGTTCGTCTCTTAAATAAGACAAACAT-GAATACTCA-CACTAATCTCCATTCT
* * * * *
1259645 TTTCAAGATTAGGAAGCCA-AAATCCATTG-CCT-T
127 TTTTAGGATTAGGCA-CCATAAA--CATAGTCTTCT
* * **
1259678 CATTAGGATACACAACATTGGTGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCTGCCCTTTTTGA
1 CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACCCTTTTTGA
* *
1259743 TAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCACACTAATCCCCATTCTTTTT
66 TAGAATCAAAGTTCGTCTCTTAAATAAGACAAACATGAATACTCACACTAATCTCCATTCTTTTT
1259808 AGGATTAGGCACCATAAACATAGTCTTCT
131 AGGATTAGGCACCATAAACATAGTCTTCT
* * *
1259837 CATTTGCATACACGATATTGATGCTTTGGT
1 CATTAGGATACACGACATTGATGCTTTGGT
1259867 TTTGTAACAA
Statistics
Matches: 1025, Mismatches: 339, Indels: 176
0.67 0.22 0.11
Matches are distributed among these distances:
153 2 0.00
154 40 0.04
155 62 0.06
156 28 0.03
157 168 0.16
158 234 0.23
159 426 0.42
160 40 0.04
161 18 0.02
162 7 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (159 bp):
CATTAGGATACACGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTCCCACCCTTTTTGA
TAGAATCAAAGTTCGTCTCTTAAATAAGACAAACATGAATACTCACACTAATCTCCATTCTTTTT
AGGATTAGGCACCATAAACATAGTCTTCT
Found at i:1260501 original size:157 final size:148
Alignment explanation
Indices: 1260316--1260629 Score: 378
Period size: 148 Copynumber: 2.1 Consensus size: 148
1260306 AAGTCTTCTG
** * *
1260316 ATTAGGATACATGATATTAACATTTTGGTTTTGCAAGAAAGGCATTTTCCCACCAATTTTTGTAA
1 ATTAGGATACACAATATTAACACTTTGGTTTTGCAACAAAGGC----T-CCACCAATTTTTGTAA
*
1260381 AGTCTAAGTAC-ATGCCTCAAATGCGACAAACATGGATTCTACTAATGATCTTCATTCATTTTGT
61 AGTCTAAGTACGA-GCCTCAAAT---A-AAACATGGATTCTACGAATGATCTTCATTCATTTTGT
* * * *
1260445 GATTAGGCACTATAAACACATTCTCCTC
121 AATAAGGCACTATAAACACAATCTCCGC
**
1260473 ATTAGGATACACAATATTAATGCTTTGGTTTTGCAACAAAGGCTCCACCAATTTTTGTAAAGTCT
1 ATTAGGATACACAATATTAACACTTTGGTTTTGCAACAAAGGCTCCACCAATTTTTGTAAAGTCT
* * * * * *
1260538 AAGTTCGAGCCTTAAATAAGACATGGATTCTAGGGATGATCTTCATTCTTTTTGTAATAAGGCAC
66 AAGTACGAGCCTCAAATAAAACATGGATTCTACGAATGATCTTCATTCATTTTGTAATAAGGCAC
1260603 TATAAACACAATCTCCGC
131 TATAAACACAATCTCCGC
1260621 ATTAGGATA
1 ATTAGGATA
1260630 AATGACATTG
Statistics
Matches: 139, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
148 65 0.47
149 1 0.01
152 34 0.24
153 2 0.01
157 37 0.27
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (148 bp):
ATTAGGATACACAATATTAACACTTTGGTTTTGCAACAAAGGCTCCACCAATTTTTGTAAAGTCT
AAGTACGAGCCTCAAATAAAACATGGATTCTACGAATGATCTTCATTCATTTTGTAATAAGGCAC
TATAAACACAATCTCCGC
Found at i:1260916 original size:623 final size:625
Alignment explanation
Indices: 1259929--1261056 Score: 1493
Period size: 624 Copynumber: 1.8 Consensus size: 625
1259919 TGCAAATGAG
* * ** *
1259929 ATAAACATGTATTCTAGTAATGATCTTCATTCATTTTGCAATTTGGCACAATAAACACATTCTCC
1 ATAAACATGGATTCTAGGAATGATCTTCATTCATTTTGCAATAAGGCACAATAAACACAATCTCC
* * * * * ** * ** *
1259994 TCCTTAGGATAAATGATATTGACAATTTTTTTTTTGCATGGAAATCTTTTCTTTGTCTTATTTTC
66 GCATTAGGATAAATGACATTGACAATTTTTCTTTTGCATGGAAATCTTTGCCCTGCCCAATTATC
* * ** * *
1260059 TTTAAAATCAAAATCCATCCCTTAAATAAGACAAGCATCGATTCTCATAACGGTCTCTATTCTTT
131 CTTAAAATCAAAATCCATCCCTTAAATAAGACAAGCATCAATTCTCATAACAATCACCATTCTTT
* * ** * *
1260124 TCAAGATTGGAAAGCTAAAACACAATCCTTTCATTAAGATACATGACATTGTTACTTTTGCGTAG
196 TCAAGATTGGAAAGCCAAAACACAATCCTTTCATTAAGATACACGACAAGGATACTTTGGCGTAG
* * * *
1260189 TAAGAGAAGCTTTTCATTCCACTATTTTTTTATAGAATCAAAGTTTGTCTCTTCAATAAGACAAA
261 CAAGAAAAGCTTTTCATTCCACCATTTTTTGATAGAATCAAAGTTTGTCTCTTCAATAAGACAAA
* * *
1260254 CATGAATACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAATGA-AGTCTTCTGAT
326 CATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAA-CATAGTCTTCTCAT
* * * * * *
1260318 TAGGATACATGATATTAACATTTTGGTTTTGCAAGAAAGGCATT-TTCCCACCAATTTTTGTAAA
390 TAGGATACACGATATTAACACTTTGGTTTTGCAACAAAAGCATTCTTCCCACAAATTGTTGTAAA
1260382 GTCTAAGTACATGCCTCAAATGC-GACAAACATGGATTCTACTAATGATCTTCATTCATTTTGTG
455 GTCTAAGTACATGCCTCAAAT-CAGACAAACATGGATTCTACTAATGATCTTCATTCATTTTGTG
1260446 ATTAGGCACTATAAACACATTCTCCTCATTAGGATACACAATATTAATGCTTTGGTTTTGCAACA
519 ATTAGGCACTATAAACACATTCTCCTCATTAGGATACACAATATTAATGCTTTGGTTTTGCAACA
1260511 AAGGCTCCACCAATTTTTGTAAAGTCTAAGTTCGAGCCTTAA
584 AAGGCTCCACCAATTTTTGTAAAGTCTAAGTTCGAGCCTTAA
* * * *
1260553 ATAAGACATGGATTCTAGGGATGATCTTCATTCTTTTTGTAATAAGGCACTATAAACACAATCTC
1 ATAA-ACATGGATTCTAGGAATGATCTTCATTCATTTTGCAATAAGGCACAATAAACACAATCTC
**
1260618 CGCATTAGGATAAATGACATTGATGA-TTTTCTTTTGCATGGAAATCTTTGCCCTGCCCAATTAT
65 CGCATTAGGATAAATGACATTGACAATTTTTCTTTTGCATGGAAATCTTTGCCCTGCCCAATTAT
* * * * * *
1260682 CCTTAAAATTAAAGTTCATCCCTTGAATAAGACAAGCATCAATTCTCGTTACAATCACCATTCTA
130 CCTTAAAATCAAAATCCATCCCTTAAATAAGACAAGCATCAATTCTCATAACAATCACCATTCT-
* * * * * * *
1260747 TTT-ATGATT-GAGAAGCCAAAACACACT-CTCTTCGTTAGGATATACGACAAGGATGCTTTGGT
194 TTTCAAGATTGGA-AAGCCAAAACACAATCCT-TTCATTAAGATACACGACAAGGATACTTTGGC
*
1260809 GTTGCAAGAAAAGCTTTTC-TTCCTACCA-TTTTTGATAGAATCAAAGTTTGTCTC-TCAAATAA
257 GTAGCAAGAAAAGCTTTTCATTCC-ACCATTTTTTGATAGAATCAAAGTTTGTCTCTTC-AATAA
*
1260871 TACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT
320 GACAAACATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT
* ** *
1260936 CTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAACAAAAGCTTTCTTCCCACAAATTGTT
385 CTCATTAGGATACACGATATTAACACTTTGGTTTTGCAACAAAAGCATTCTTCCCACAAATTGTT
* * *
1261001 GTAAAGTCTAAGTTCGTGCCTCAAATCAGACAAACATGGATTCTAGTAATGATCTT
450 GTAAAGTCTAAGTACATGCCTCAAATCAGACAAACATGGATTCTACTAATGATCTT
1261057 TATCCGAATT
Statistics
Matches: 426, Mismatches: 69, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
622 3 0.01
623 139 0.33
624 209 0.49
625 75 0.18
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (625 bp):
ATAAACATGGATTCTAGGAATGATCTTCATTCATTTTGCAATAAGGCACAATAAACACAATCTCC
GCATTAGGATAAATGACATTGACAATTTTTCTTTTGCATGGAAATCTTTGCCCTGCCCAATTATC
CTTAAAATCAAAATCCATCCCTTAAATAAGACAAGCATCAATTCTCATAACAATCACCATTCTTT
TCAAGATTGGAAAGCCAAAACACAATCCTTTCATTAAGATACACGACAAGGATACTTTGGCGTAG
CAAGAAAAGCTTTTCATTCCACCATTTTTTGATAGAATCAAAGTTTGTCTCTTCAATAAGACAAA
CATGAATACTCACACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATT
AGGATACACGATATTAACACTTTGGTTTTGCAACAAAAGCATTCTTCCCACAAATTGTTGTAAAG
TCTAAGTACATGCCTCAAATCAGACAAACATGGATTCTACTAATGATCTTCATTCATTTTGTGAT
TAGGCACTATAAACACATTCTCCTCATTAGGATACACAATATTAATGCTTTGGTTTTGCAACAAA
GGCTCCACCAATTTTTGTAAAGTCTAAGTTCGAGCCTTAA
Done.